BLASTP 2.0.10 [Aug-26-1999]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= PAB7151 (rpoH) DE:DNA-directed RNA polymerase, subunit H (rpoH)
         (82 letters)

Database: ./suso.pep; /banques/blast2/nr.pep
           598,487 sequences; 189,106,746 total letters

Searching..................................................done

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

pir||H75181 DNA-directed RNA polymerase, chain H (rpoh) PAB7151 ...   164  1e-40
sp|O74019|RPOH_PYRHO DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|7...   159  6e-39
sp|P31815|RPOH_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|9...   128  1e-29
gi|11499469 DNA-directed RNA polymerase, subunit H (rpoH) [Archa...    82  8e-16
sp|O27122|RPOH_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT H (RPB5...    81  2e-15
gb|AAC28253.1| (AF019248) RNA polymerase I, II and III 24.3 kDa ...    81  2e-15
sp|P11521|RPOH_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT H             80  3e-15
pir||S04715 hypothetical protein 88 - Sulfolobus acidocaldarius ...    80  3e-15
sp|Q9YAT3|RPOH_AERPE DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|7...    78  2e-14
sp|Q58443|RPOH_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|2...    77  3e-14
emb|CAC11533.1| (AL445064) DNA-DIRECTED RNA POLYMERASE CHAIN H r...    77  3e-14
sp|Q03588|RPOH_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|2...    77  3e-14
sp|Q09191|RPB5_SCHPO DNA-DIRECTED RNA POLYMERASES II 24 KD POLYP...    75  1e-13
gb|AAF91238.1|AF225206_4 (AF225206) RNA polymerase subunit [Kluy...    73  5e-13
gb|AAC60556.1|S59774_1 (S59774) RNA polymerase subunit [Saccharo...    73  6e-13
gi|6319630 25-kDa RNA polymerase subunit (common to polymerases ...    73  6e-13
gb|AAF39906.1| (AC006665) contains similarity to Pfam familiy PF...    72  1e-12
sp|P41559|RPOH_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|9...    71  1e-12
gb|AAA62401.1| (J04965) RNA polymerase II 23kD subunit [Homo sap...    71  2e-12
sp|P19388|RPB5_HUMAN DNA-DIRECTED RNA POLYMERASE II 23 KD POLYPE...    71  2e-12
gb|AAC03238.1| (AC004151) RPB5_Human [Homo sapiens]                    71  2e-12
gi|4505945 polymerase (RNA) II (DNA directed) polypeptide E (25k...    70  4e-12
gb|AAK40569.1| DNA-directed RNA polymerase, subunit H (rpoH) [Su...    68  1e-11
gb|AAF58728.1| (AE003828) CG11979 gene product [Drosophila melan...    68  1e-11
dbj|BAB00074.1| (AB022217) RNA polymerase-like protein [Arabidop...    67  4e-11

>pir||H75181 DNA-directed RNA polymerase, chain H (rpoh) PAB7151 - Pyrococcus
          abyssi (strain Orsay) >gi|5458045|emb|CAB49535.1|
          (AJ248284) DNA-directed RNA polymerase, subunit H
          (rpoH) [Pyrococcus abyssi]
          Length = 82
          
 Score =  164 bits (412), Expect = 1e-40
 Identities = 81/82 (98%), Positives = 82/82 (99%)

Query: 1  VAGKSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDI 60
          +AGKSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDI
Sbjct: 1  MAGKSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDI 60

Query: 61 IEIKRKSPTAGVYYYYRVVVED 82
          IEIKRKSPTAGVYYYYRVVVED
Sbjct: 61 IEIKRKSPTAGVYYYYRVVVED 82


>sp|O74019|RPOH_PYRHO DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|7434679|pir||B71032
          probable DNA-directed RNA polymerase subunit Hprotein -
          Pyrococcus horikoshii >gi|3257975|dbj|BAA30658.1|
          (AP000006) 82aa long hypothetical DNA-directed RNA
          polymerase subunit Hprotein [Pyrococcus horikoshii]
          Length = 82
          
 Score =  159 bits (397), Expect = 6e-39
 Identities = 76/82 (92%), Positives = 82/82 (99%)

Query: 1  VAGKSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDI 60
          ++GK+EFNIFKHVLVPEHRILSEEEKKALLEKY+ITPAQLPQI+ASDPAVKALGAKPGDI
Sbjct: 1  MSGKNEFNIFKHVLVPEHRILSEEEKKALLEKYKITPAQLPQIRASDPAVKALGAKPGDI 60

Query: 61 IEIKRKSPTAGVYYYYRVVVED 82
          IEIKR+SPTAGVYYYYRVVVED
Sbjct: 61 IEIKRRSPTAGVYYYYRVVVED 82


>sp|P31815|RPOH_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|99239|pir||S20107
          DNA-directed RNA polymerase (EC 2.7.7.6) chain H -
          Thermococcus celer >gi|809777|emb|CAA41801.1| (X59077)
          DNA-dependent RNA  polymerase (subunit H) [Thermococcus
          celer] >gi|809778|emb|CAA47721.1| (X67313) Subunit H of
          DNA-dependent  RNA polymerase [Thermococcus celer]
          Length = 82
          
 Score =  128 bits (318), Expect = 1e-29
 Identities = 63/82 (76%), Positives = 70/82 (84%)

Query: 1  VAGKSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDI 60
          +A K EF+IF H LVPEHRILSEEE K LL +YRI  +QLPQIKASDPAV ALGAKPGD+
Sbjct: 1  MATKKEFDIFAHELVPEHRILSEEETKELLRRYRIQISQLPQIKASDPAVVALGAKPGDV 60

Query: 61 IEIKRKSPTAGVYYYYRVVVED 82
          +EIKRKS TAG YYYYR+VVED
Sbjct: 61 LEIKRKSRTAGYYYYYRLVVED 82


>gi|11499469 DNA-directed RNA polymerase, subunit H (rpoH) [Archaeoglobus
          fulgidus] >gi|6685900|sp|O28394|RPOH_ARCFU DNA-DIRECTED
          RNA POLYMERASE SUBUNIT H >gi|7434680|pir||D69485
          DNA-directed RNA polymerase, subunit H (rpoH) homolog -
          Archaeoglobus fulgidus >gi|2648663|gb|AAB89370.1|
          (AE000972) DNA-directed RNA polymerase, subunit H
          (rpoH) [Archaeoglobus fulgidus]
          Length = 76
          
 Score = 82.3 bits (200), Expect = 8e-16
 Identities = 40/75 (53%), Positives = 54/75 (71%)

Query: 6  EFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKR 65
          +F +  H+LVP+H +LS+EE + LL+   I   QLP+IKA DP  K +GAKPGDI++I R
Sbjct: 2  KFKLQDHMLVPKHEVLSKEEAEELLKILGIGKEQLPKIKADDPIAKEIGAKPGDIVKITR 61

Query: 66 KSPTAGVYYYYRVVV 80
          KS TAG   +YR+VV
Sbjct: 62 KSLTAGESVFYRLVV 76


>sp|O27122|RPOH_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT H (RPB5)
          >gi|7434681|pir||C69006 DNA-dependent RNA polymerase,
          subunit H - Methanobacterium thermoautotrophicum
          (strain Delta H) >gi|9257044|pdb|1EIK|A Chain A,
          Solution Structure Of Rna Polymerase Subunit Rpb5 From
          Methanobacterium Thermoautotrophicum
          >gi|2622147|gb|AAB85539.1| (AE000876) DNA-dependent RNA
          polymerase, subunit H  [Methanobacterium
          thermoautotrophicum]
          Length = 77
          
 Score = 81.1 bits (197), Expect = 2e-15
 Identities = 40/71 (56%), Positives = 51/71 (71%)

Query: 9  IFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKSP 68
          I KH LVPEH IL+E E K +L++    P QLP+IK +DP  KA+GAK GDI++I RKSP
Sbjct: 5  ILKHQLVPEHVILNESEAKRVLKELDAHPEQLPKIKTTDPVAKAIGAKRGDIVKIIRKSP 64

Query: 69 TAGVYYYYRVV 79
          TA  +  YR+V
Sbjct: 65 TAEEFVTYRLV 75


>gb|AAC28253.1| (AF019248) RNA polymerase I, II and III 24.3 kDa subunit
           [Arabidopsis thaliana] >gi|9293866|dbj|BAB01769.1|
           (AB022215) RNA polymerase I, II and III 24.3 kDa subunit
           [Arabidopsis thaliana]
           Length = 205
           
 Score = 81.1 bits (197), Expect = 2e-15
 Identities = 38/73 (52%), Positives = 51/73 (69%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI +HVLVPEH++L+ EEKK LLE+Y +   QLP+I+ +DP  +  G K G +++I R S
Sbjct: 133 NIKEHVLVPEHQVLTTEEKKTLLERYTVKETQLPRIQVTDPIARYFGLKRGQVVKIIRPS 192

Query: 68  PTAGVYYYYRVVV 80
            TAG Y  YR VV
Sbjct: 193 ETAGRYVTYRYVV 205


>sp|P11521|RPOH_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT H
          Length = 84
          
 Score = 80.4 bits (195), Expect = 3e-15
 Identities = 40/79 (50%), Positives = 52/79 (65%)

Query: 2  AGKSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDII 61
          + K + +I  H LVP+H IL  EE   L+++  I P QLP I+ASDP  K++GAKPGDII
Sbjct: 4  SSKKKIDISNHELVPKHEILQLEEAYKLVKELGIKPEQLPWIRASDPVAKSIGAKPGDII 63

Query: 62 EIKRKSPTAGVYYYYRVVV 80
          +I RKSP  G    YR V+
Sbjct: 64 KITRKSPFTGESVTYRYVI 82


>pir||S04715 hypothetical protein 88 - Sulfolobus acidocaldarius
          >gi|46668|emb|CAA32923.1| (X14818) ORF 88 (AA 1-88)
          [Sulfolobus acidocaldarius]
          Length = 88
          
 Score = 80.4 bits (195), Expect = 3e-15
 Identities = 40/79 (50%), Positives = 52/79 (65%)

Query: 2  AGKSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDII 61
          + K + +I  H LVP+H IL  EE   L+++  I P QLP I+ASDP  K++GAKPGDII
Sbjct: 8  SSKKKIDISNHELVPKHEILQLEEAYKLVKELGIKPEQLPWIRASDPVAKSIGAKPGDII 67

Query: 62 EIKRKSPTAGVYYYYRVVV 80
          +I RKSP  G    YR V+
Sbjct: 68 KITRKSPFTGESVTYRYVI 86


>sp|Q9YAT3|RPOH_AERPE DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|7521037|pir||D72572
          probable DNA-directed RNA polymerase, subunit H APES061
          - Aeropyrum pernix (strain K1)
          >gi|5105552|dbj|BAA80865.1| (AP000062) 90aa long
          hypothetical DNA-directed RNA polymerase, subunit H
          [Aeropyrum pernix]
          Length = 90
          
 Score = 77.6 bits (188), Expect = 2e-14
 Identities = 42/77 (54%), Positives = 50/77 (64%)

Query: 4  KSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEI 63
          KS   I +H  VPEHR+LS EE   +L+   I P QLP+I  +DP  + L AKPGDIIEI
Sbjct: 7  KSSRVILEHEYVPEHRLLSIEEAVQVLKMLGIKPWQLPKISVNDPIARLLKAKPGDIIEI 66

Query: 64 KRKSPTAGVYYYYRVVV 80
           R+S TAG   YYR VV
Sbjct: 67 TRRSYTAGEAKYYRFVV 83


>sp|Q58443|RPOH_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|2127870|pir||F64429
          DNA-directed RNA polymerase (EC 2.7.7.6) subunit H -
          Methanococcus jannaschii >gi|4930045|pdb|1HMJ|A Chain
          A, Solution Structure Of Rna Polymerase Subunit H
          >gi|1591692|gb|AAB99042.1| (U67546) DNA-directed RNA
          polymerase, subunit H (rpoH) [Methanococcus jannaschii]
          Length = 78
          
 Score = 77.3 bits (187), Expect = 3e-14
 Identities = 33/70 (47%), Positives = 51/70 (72%)

Query: 12 HVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKSPTAG 71
          H+LVP+H I+ +EE + +L++Y I   QLP+I   DP ++ +GAK GD++ + RKSPTAG
Sbjct: 6  HILVPKHEIVPKEEVEEILKRYNIKIQQLPKIYEDDPVIQEIGAKEGDVVRVIRKSPTAG 65

Query: 72 VYYYYRVVVE 81
          V   YR+V++
Sbjct: 66 VSIAYRLVIK 75


>emb|CAC11533.1| (AL445064) DNA-DIRECTED RNA POLYMERASE CHAIN H related protein
          [Thermoplasma acidophilum]
          Length = 91
          
 Score = 77.3 bits (187), Expect = 3e-14
 Identities = 42/87 (48%), Positives = 55/87 (62%), Gaps = 5/87 (5%)

Query: 1  VAGKSEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGA----- 55
          V   ++FN+  H LVPEH I+ EEE+K +L++  I    LP+I  +DPA+KAL A     
Sbjct: 2  VVKMAKFNVLDHNLVPEHHIVPEEEEKNILKELNIEKEFLPKISPNDPAIKALEAVHGKI 61

Query: 56 KPGDIIEIKRKSPTAGVYYYYRVVVED 82
          K G II+I RKSPT G   YYRVV  +
Sbjct: 62 KEGTIIKIVRKSPTMGHSVYYRVVASE 88


>sp|Q03588|RPOH_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|280359|pir||S26721
          DNA-directed RNA polymerase (EC 2.7.7.6) chain H -
          Thermoplasma acidophilum >gi|48090|emb|CAA48279.1|
          (X68198) DNA-directed RNA polymerase [Thermoplasma
          acidophilum]
          Length = 87
          
 Score = 76.9 bits (186), Expect = 3e-14
 Identities = 41/83 (49%), Positives = 54/83 (64%), Gaps = 5/83 (6%)

Query: 5  SEFNIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGA-----KPGD 59
          ++FN+  H LVPEH I+ EEE+K +L++  I    LP+I  +DPA+KAL A     K G 
Sbjct: 2  AKFNVLDHNLVPEHHIVPEEEEKNILKELNIEKEFLPKISPNDPAIKALEAVHGKIKEGT 61

Query: 60 IIEIKRKSPTAGVYYYYRVVVED 82
          II+I RKSPT G   YYRVV  +
Sbjct: 62 IIKIVRKSPTMGHSVYYRVVASE 84


>sp|Q09191|RPB5_SCHPO DNA-DIRECTED RNA POLYMERASES II 24 KD POLYPEPTIDE (RNA POLYMERASE
           II SUBUNIT 5) >gi|7490495|pir||T38270 DNA-directed RNA
           polymerases II 24K polypeptide - fission yeast
           (Schizosaccharomyces pombe) >gi|1345439|dbj|BAA07843.1|
           (D43785) RNA polymerase II 5th largest subunit
           [Schizosaccharomyces pombe] >gi|2465157|emb|CAB16886.1|
           (Z99753) dna-directed rna polymerase i ii and iii 24 kd
           polypeptide [Schizosaccharomyces pombe]
           >gi|2708526|gb|AAB92515.1| (AF027820) Rpb5
           [Schizosaccharomyces pombe]
           Length = 210
           
 Score = 74.9 bits (181), Expect = 1e-13
 Identities = 33/71 (46%), Positives = 51/71 (71%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI  H LVP+H +LS +EKK LL++Y++   QLP+I+ +DP  + LG K G++++I R+S
Sbjct: 138 NITHHELVPKHILLSPDEKKELLDRYKLRETQLPRIQLADPVARYLGLKRGEVVKIVRRS 197

Query: 68  PTAGVYYYYRV 78
            T+G Y  YR+
Sbjct: 198 ETSGRYNSYRI 208


>gb|AAF91238.1|AF225206_4 (AF225206) RNA polymerase subunit [Kluyveromyces marxianus]
           Length = 215
           
 Score = 73.0 bits (176), Expect = 5e-13
 Identities = 36/71 (50%), Positives = 49/71 (68%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI  H LVP+H  LS+ EKK LL++YR+  +QLP+I+  DP    LG K G++I+I RKS
Sbjct: 143 NITHHELVPKHIRLSDAEKKELLKRYRLKESQLPRIQRMDPVALYLGLKRGEVIKIIRKS 202

Query: 68  PTAGVYYYYRV 78
            T+G Y  YR+
Sbjct: 203 ETSGRYASYRI 213


>gb|AAC60556.1|S59774_1 (S59774) RNA polymerase subunit [Saccharomyces cerevisiae]
           Length = 215
           
 Score = 72.6 bits (175), Expect = 6e-13
 Identities = 34/71 (47%), Positives = 50/71 (69%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI  H LVP+H  LS +EK+ LL++YR+  +QLP+I+ +DP    LG K G++++I RKS
Sbjct: 143 NITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRKS 202

Query: 68  PTAGVYYYYRV 78
            T+G Y  YR+
Sbjct: 203 ETSGRYASYRI 213


>gi|6319630 25-kDa RNA polymerase subunit (common to polymerases I, II and
           III); Rpb5p [Saccharomyces cerevisiae]
           >gi|133338|sp|P20434|RPB5_YEAST DNA-DIRECTED RNA
           POLYMERASES I, II, AND III 27 KD POLYPEPTIDE (ABC27)
           >gi|101299|pir||A34588 DNA-directed RNA polymerase (EC
           2.7.7.6) chain RPB5 - yeast  (Saccharomyces cerevisiae)
           >gi|9257127|pdb|1DZF|A Chain A, Rpb5 From S.Cerevisiae
           >gi|287822|emb|CAA37381.1| (X53287) RNA polymerase RPB5
           subunit [Saccharomyces cerevisiae]
           >gi|396754|emb|CAA50472.1| (X71329) DNA-directed RNA
           polymerase [Saccharomyces cerevisiae]
           >gi|536484|emb|CAA85113.1| (Z36023) ORF YBR154c
           [Saccharomyces cerevisiae]
           Length = 215
           
 Score = 72.6 bits (175), Expect = 6e-13
 Identities = 34/71 (47%), Positives = 50/71 (69%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI  H LVP+H  LS +EK+ LL++YR+  +QLP+I+ +DP    LG K G++++I RKS
Sbjct: 143 NITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRKS 202

Query: 68  PTAGVYYYYRV 78
            T+G Y  YR+
Sbjct: 203 ETSGRYASYRI 213


>gb|AAF39906.1| (AC006665) contains similarity to Pfam familiy PF01191 (RNA
           polymerases H / 23 Kd subunit), score=163.3, E=4.1e-45,
           N=1 [Caenorhabditis elegans]
           Length = 211
           
 Score = 71.8 bits (173), Expect = 1e-12
 Identities = 33/73 (45%), Positives = 49/73 (66%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI +H LVPEH +++ EEK  LL +Y++  +QLP+I+  DP  +  G + G +++I R S
Sbjct: 139 NITEHELVPEHVVMTAEEKAELLARYKLKDSQLPRIQQCDPVARYFGLRRGQVVKIIRPS 198

Query: 68  PTAGVYYYYRVVV 80
            TAG Y  YR+VV
Sbjct: 199 ETAGRYITYRLVV 211


>sp|P41559|RPOH_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT H >gi|99133|pir||S23795
          DNA-directed RNA polymerase (EC 2.7.7.6) chain H -
          Methanococcus vannielii >gi|581387|emb|CAA51725.1|
          (X73293) DNA-directed RNA polymerase [Methanococcus
          vannielii] >gi|809732|emb|CAA41862.1| (X59151) subunit
          H of DNA-dependent  RNA polymerase [Methanococcus
          vannielii]
          Length = 78
          
 Score = 71.4 bits (172), Expect = 1e-12
 Identities = 36/74 (48%), Positives = 48/74 (64%)

Query: 9  IFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKSP 68
          +  H +VPEH I+  +E   LLEKY I   Q P++  SDP V  +GAK GDI++I RKS 
Sbjct: 3  VSSHEMVPEHEIIPGDEIPFLLEKYGIKIQQFPKLLISDPLVIEVGAKVGDIVKITRKSQ 62

Query: 69 TAGVYYYYRVVVED 82
          TAG   Y+R+VV +
Sbjct: 63 TAGETVYFRLVVSN 76


>gb|AAA62401.1| (J04965) RNA polymerase II 23kD subunit [Homo sapiens]
           Length = 210
           
 Score = 70.6 bits (170), Expect = 2e-12
 Identities = 33/72 (45%), Positives = 48/72 (65%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI +H LVPEH ++++EE   LL +Y++   QLP+I+A DP  +  G K G +++I R S
Sbjct: 138 NITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVARYFGIKRGQVVKIIRPS 197

Query: 68  PTAGVYYYYRVV 79
            TAG Y  YR+V
Sbjct: 198 ETAGRYITYRLV 209


>sp|P19388|RPB5_HUMAN DNA-DIRECTED RNA POLYMERASE II 23 KD POLYPEPTIDE (RPB25) (XAP4)
           (RPB5)
           Length = 210
           
 Score = 70.6 bits (170), Expect = 2e-12
 Identities = 33/72 (45%), Positives = 48/72 (65%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI +H LVPEH ++++EE   LL +Y++   QLP+I+A DP  +  G K G +++I R S
Sbjct: 138 NITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVARYFGIKRGQVVKIIRPS 197

Query: 68  PTAGVYYYYRVV 79
            TAG Y  YR+V
Sbjct: 198 ETAGRYITYRLV 209


>gb|AAC03238.1| (AC004151) RPB5_Human [Homo sapiens]
           Length = 210
           
 Score = 70.6 bits (170), Expect = 2e-12
 Identities = 33/72 (45%), Positives = 48/72 (65%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI +H LVPEH ++++EE   LL +Y++   QLP+I+A DP  +  G K G +++I R S
Sbjct: 138 NITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVARYFGIKRGQVVKIIRPS 197

Query: 68  PTAGVYYYYRVV 79
            TAG Y  YR+V
Sbjct: 198 ETAGRYITYRLV 209


>gi|4505945 polymerase (RNA) II (DNA directed) polypeptide E (25kD) [Homo
           sapiens] >gi|2135016|pir||A32618 DNA-directed RNA
           polymerase (EC 2.7.7.6) II 23K chain [validated] - human
           >gi|1060912|dbj|BAA07406.1| (D38251) RPB5 [Homo sapiens]
           Length = 210
           
 Score = 69.9 bits (168), Expect = 4e-12
 Identities = 32/72 (44%), Positives = 48/72 (66%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI +H LVPEH ++++EE   LL +Y++   QLP+I+A DP  +  G + G +++I R S
Sbjct: 138 NITEHELVPEHVVMTKEEVSELLARYKLRENQLPRIQAGDPVARYFGIRRGQVVKIIRPS 197

Query: 68  PTAGVYYYYRVV 79
            TAG Y  YR+V
Sbjct: 198 ETAGRYITYRLV 209


>gb|AAK40569.1| DNA-directed RNA polymerase, subunit H (rpoH) [Sulfolobus
          solfataricus]
          Length = 84
          
 Score = 68.3 bits (164), Expect = 1e-11
 Identities = 33/69 (47%), Positives = 45/69 (64%)

Query: 12 HVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKSPTAG 71
          H LVP+H +L+ +E   +L++  I P QLP I+ASDP  +++ AKPGDII I RKS   G
Sbjct: 14 HYLVPKHEVLNIDEAYKILKELGIRPEQLPWIRASDPVARSINAKPGDIIRIIRKSQLYG 73

Query: 72 VYYYYRVVV 80
              YR V+
Sbjct: 74 EVVSYRYVI 82


>gb|AAF58728.1| (AE003828) CG11979 gene product [Drosophila melanogaster]
           Length = 210
           
 Score = 68.3 bits (164), Expect = 1e-11
 Identities = 32/72 (44%), Positives = 47/72 (64%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           NI +H LVPEH +++ EEK+ LL +Y++    L +I+A DP  +  G K G +++I R S
Sbjct: 138 NITEHELVPEHVVMTVEEKQELLSRYKLKENMLMRIQAGDPVARYFGLKRGQVVKIIRSS 197

Query: 68  PTAGVYYYYRVV 79
            TAG Y  YR+V
Sbjct: 198 ETAGRYISYRLV 209


>dbj|BAB00074.1| (AB022217) RNA polymerase-like protein [Arabidopsis thaliana]
           Length = 178
           
 Score = 66.7 bits (160), Expect = 4e-11
 Identities = 31/73 (42%), Positives = 46/73 (62%)

Query: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLPQIKASDPAVKALGAKPGDIIEIKRKS 67
           N+ +HV VPEH+ L+ EEK+  LE+ R     LP+I  +DP  +  G K G++++I R S
Sbjct: 106 NVKEHVFVPEHQALTTEEKQKFLERKRTRFVVLPRIHVTDPIARYFGLKRGEVVKISRLS 165

Query: 68  PTAGVYYYYRVVV 80
            T+G Y  YR V+
Sbjct: 166 ETSGRYITYRYVI 178


  Database: ./suso.pep
    Posted date:  Jul 6, 2001  5:57 PM
  Number of letters in database: 840,471
  Number of sequences in database:  2977
  
  Database: /banques/blast2/nr.pep
    Posted date:  Dec 14, 2000 12:46 PM
  Number of letters in database: 188,266,275
  Number of sequences in database:  595,510
  
Lambda     K      H
   0.316    0.136    0.378 

Gapped
Lambda     K      H
   0.270   0.0470    0.230 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31820181
Number of Sequences: 2977
Number of extensions: 1087197
Number of successful extensions: 3406
Number of sequences better than 1.0e-10: 25
Number of HSP's better than  0.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 3378
Number of HSP's gapped (non-prelim): 26
length of query: 82
length of database: 189,106,746
effective HSP length: 53
effective length of query: 29
effective length of database: 157,386,935
effective search space: 4564221115
effective search space used: 4564221115
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.5 bits)
S2: 157 (65.6 bits)