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= PAB2236 (pri1) DE:DNA primase
         (345 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||C75207 DNA primase PAB2236 - Pyrococcus abyssi (strain Orsa...   707  0.0
sp|O57934|PRIM_PYRHO PUTATIVE DNA PRIMASE >gi|7518519|pir||A7124...   608  e-173
dbj|BAB03293.1| (AB037376) DNA primase [Pyrococcus furiosus]          582  e-165
pir||T50696 DNA primase small chain homolog [imported] - thermop...   432  e-120
sp|O26685|PRIM_METTH PUTATIVE DNA PRIMASE >gi|7482226|pir||E6917...   233  2e-60
gi|11498348 DNA primase, putative [Archaeoglobus fulgidus] >gi|8...   109  5e-23
gb|AAG19774.1| (AE005062) DNA primase; Pri [Halobacterium sp. NR...    76  4e-13

>pir||C75207 DNA primase PAB2236 - Pyrococcus abyssi (strain Orsay)
           >gi|5457615|emb|CAB49106.1| (AJ248283) DNA primase
           [Pyrococcus abyssi]
           Length = 345
           
 Score =  707 bits (1804), Expect = 0.0
 Identities = 345/345 (100%), Positives = 345/345 (100%)

Query: 1   MLLREVTKEERKEFYSNEWNAKQIPDFILQNLDKREFGFDHTGEGPSDRKNSYTDVRDLE 60
           MLLREVTKEERKEFYSNEWNAKQIPDFILQNLDKREFGFDHTGEGPSDRKNSYTDVRDLE
Sbjct: 1   MLLREVTKEERKEFYSNEWNAKQIPDFILQNLDKREFGFDHTGEGPSDRKNSYTDVRDLE 60

Query: 61  DYIKATAPYAVYSSVAFYEKPQEMEGWLGAELVFDIDAKDLPLRRCNHEPGKVCPICLND 120
           DYIKATAPYAVYSSVAFYEKPQEMEGWLGAELVFDIDAKDLPLRRCNHEPGKVCPICLND
Sbjct: 61  DYIKATAPYAVYSSVAFYEKPQEMEGWLGAELVFDIDAKDLPLRRCNHEPGKVCPICLND 120

Query: 121 AKEIARDTLIVLKEELGFEDVHVVYSGRGYHIRVMDGWALSLDSKSRERILSFISASEIE 180
           AKEIARDTLIVLKEELGFEDVHVVYSGRGYHIRVMDGWALSLDSKSRERILSFISASEIE
Sbjct: 121 AKEIARDTLIVLKEELGFEDVHVVYSGRGYHIRVMDGWALSLDSKSRERILSFISASEIE 180

Query: 181 DHSEFRKMLLERRGWFVLNHGYPRVFRLRFGYFILRVKVEHLINFGIRKNIAKRILDNKE 240
           DHSEFRKMLLERRGWFVLNHGYPRVFRLRFGYFILRVKVEHLINFGIRKNIAKRILDNKE
Sbjct: 181 DHSEFRKMLLERRGWFVLNHGYPRVFRLRFGYFILRVKVEHLINFGIRKNIAKRILDNKE 240

Query: 241 TIYEEFVRKGILAAFPDGVGIESLAKLFALSTRFSKAYFDGRVTVDLKRILRLPSTLHSK 300
           TIYEEFVRKGILAAFPDGVGIESLAKLFALSTRFSKAYFDGRVTVDLKRILRLPSTLHSK
Sbjct: 241 TIYEEFVRKGILAAFPDGVGIESLAKLFALSTRFSKAYFDGRVTVDLKRILRLPSTLHSK 300

Query: 301 VGLIAKYIGNNERDVMRFNPFKHAVPKFRRKEVKEEYKRFLEENF 345
           VGLIAKYIGNNERDVMRFNPFKHAVPKFRRKEVKEEYKRFLEENF
Sbjct: 301 VGLIAKYIGNNERDVMRFNPFKHAVPKFRRKEVKEEYKRFLEENF 345


>sp|O57934|PRIM_PYRHO PUTATIVE DNA PRIMASE >gi|7518519|pir||A71242 hypothetical protein
           PH0195 - Pyrococcus horikoshii
           >gi|3256581|dbj|BAA29264.1| (AP000001) 346aa long
           hypothetical protein [Pyrococcus horikoshii]
           Length = 346
           
 Score =  608 bits (1552), Expect = e-173
 Identities = 287/342 (83%), Positives = 314/342 (90%)

Query: 1   MLLREVTKEERKEFYSNEWNAKQIPDFILQNLDKREFGFDHTGEGPSDRKNSYTDVRDLE 60
           MLLREVT+EERK FY+NEW  K IPDFI++ L+ REFGFDH+GEGPSDRKN YTD+RDLE
Sbjct: 1   MLLREVTREERKNFYTNEWKVKDIPDFIVKTLELREFGFDHSGEGPSDRKNQYTDIRDLE 60

Query: 61  DYIKATAPYAVYSSVAFYEKPQEMEGWLGAELVFDIDAKDLPLRRCNHEPGKVCPICLND 120
           DYI+ATAPYAVYSSVA YEKPQEMEGWLG ELVFDIDAKDLPLRRC HEPG VCPICLND
Sbjct: 61  DYIRATAPYAVYSSVALYEKPQEMEGWLGTELVFDIDAKDLPLRRCEHEPGTVCPICLND 120

Query: 121 AKEIARDTLIVLKEELGFEDVHVVYSGRGYHIRVMDGWALSLDSKSRERILSFISASEIE 180
           AKEI RDT+I+L+EELGF D+H++YSGRGYHIRV+D WAL LDSKSRERILSF+SASEIE
Sbjct: 121 AKEIVRDTVIILREELGFNDIHIIYSGRGYHIRVLDEWALKLDSKSRERILSFVSASEIE 180

Query: 181 DHSEFRKMLLERRGWFVLNHGYPRVFRLRFGYFILRVKVEHLINFGIRKNIAKRILDNKE 240
           D  EFRK+LL +RGWFVLNHGYPR FRLRFGYFILR+K+ HLIN GIRK+IAK IL +KE
Sbjct: 181 DVEEFRKLLLNKRGWFVLNHGYPRAFRLRFGYFILRIKLPHLINAGIRKSIAKSILKSKE 240

Query: 241 TIYEEFVRKGILAAFPDGVGIESLAKLFALSTRFSKAYFDGRVTVDLKRILRLPSTLHSK 300
            IYEEFVRK ILAAFP GVGIESLAKLFALSTRFSK+YFDGRVTVDLKRILRLPSTLHSK
Sbjct: 241 EIYEEFVRKAILAAFPQGVGIESLAKLFALSTRFSKSYFDGRVTVDLKRILRLPSTLHSK 300

Query: 301 VGLIAKYIGNNERDVMRFNPFKHAVPKFRRKEVKEEYKRFLE 342
           VGLIAKY+G NERDVMRFNPFKHAVPKFR++EVK EYK+FLE
Sbjct: 301 VGLIAKYVGTNERDVMRFNPFKHAVPKFRKEEVKVEYKKFLE 342


>dbj|BAB03293.1| (AB037376) DNA primase [Pyrococcus furiosus]
           Length = 347
           
 Score =  582 bits (1484), Expect = e-165
 Identities = 272/342 (79%), Positives = 311/342 (90%)

Query: 1   MLLREVTKEERKEFYSNEWNAKQIPDFILQNLDKREFGFDHTGEGPSDRKNSYTDVRDLE 60
           ML+REVTKEER EFYS EW+AK+IP FI+  L+ REFGFDH GEGPSDRKN Y+D+RDLE
Sbjct: 1   MLMREVTKEERSEFYSKEWSAKKIPKFIVDTLESREFGFDHNGEGPSDRKNQYSDIRDLE 60

Query: 61  DYIKATAPYAVYSSVAFYEKPQEMEGWLGAELVFDIDAKDLPLRRCNHEPGKVCPICLND 120
           DYI+AT+PYAVYSSVAFYE P+EMEGW GAELVFDIDAKDLPL+RCNHEPG VCPICL D
Sbjct: 61  DYIRATSPYAVYSSVAFYENPREMEGWRGAELVFDIDAKDLPLKRCNHEPGTVCPICLED 120

Query: 121 AKEIARDTLIVLKEELGFEDVHVVYSGRGYHIRVMDGWALSLDSKSRERILSFISASEIE 180
           AKE+A+DTLI+L+EELGFE++HVVYSGRGYHIR++D WAL LDSKSRERIL+FISASEIE
Sbjct: 121 AKELAKDTLIILREELGFENIHVVYSGRGYHIRILDEWALQLDSKSRERILAFISASEIE 180

Query: 181 DHSEFRKMLLERRGWFVLNHGYPRVFRLRFGYFILRVKVEHLINFGIRKNIAKRILDNKE 240
           +  EFR+ LLE+RGWFVL HGYPRVFRLR GYFILRV V HL++ GIR+NIAK+ILD+KE
Sbjct: 181 NVEEFRRFLLEKRGWFVLKHGYPRVFRLRLGYFILRVNVPHLLSIGIRRNIAKKILDHKE 240

Query: 241 TIYEEFVRKGILAAFPDGVGIESLAKLFALSTRFSKAYFDGRVTVDLKRILRLPSTLHSK 300
            IYE FVRK ILA+FP+GVGIES+AKLFALSTRFSKAYFDGRVTVD+KRILRLPSTLHSK
Sbjct: 241 EIYEGFVRKAILASFPEGVGIESMAKLFALSTRFSKAYFDGRVTVDIKRILRLPSTLHSK 300

Query: 301 VGLIAKYIGNNERDVMRFNPFKHAVPKFRRKEVKEEYKRFLE 342
           VGLIA Y+G  ER+VM+FNPF+HAVPKFR+KEV+E YK + E
Sbjct: 301 VGLIATYVGTKEREVMKFNPFRHAVPKFRKKEVREAYKLWRE 342


>pir||T50696 DNA primase small chain homolog [imported] - thermophilic bacterium
           'Bonch-Osmolovskaya' >gi|3342819|gb|AAC27713.1|
           (AF076685) primase small subunit homolog [thermophilic
           archaeon 'Bonch-Osmolovskaya']
           Length = 357
           
 Score =  432 bits (1100), Expect = e-120
 Identities = 217/355 (61%), Positives = 269/355 (75%), Gaps = 17/355 (4%)

Query: 2   LLREVTKEERKEFYSNEWNAKQIPDFILQNLDKREFGFDHTGEGPSDRKNSYTDVRDLED 61
           L RE TKEER ++Y  EW+AK++P+FI++ L+ REFGFDHTGEGPSDRKN + DVRDLED
Sbjct: 4   LFREATKEERAKYYRGEWSAKRLPEFIVETLENREFGFDHTGEGPSDRKNVFLDVRDLED 63

Query: 62  YIKATAPYAVYSSVAFYEKPQEMEGWLGAELVFDIDAKDLPLRRCN--HEPGKVCPICLN 119
           Y+KATAPYAVYSSVA YE+P+EMEGWLGAELVFDIDAKDLPLRRC   HE GKVCPICL 
Sbjct: 64  YMKATAPYAVYSSVALYEEPREMEGWLGAELVFDIDAKDLPLRRCQHIHEHGKVCPICLE 123

Query: 120 DAKEIARDTLIVLKEELGFEDVHVVYSGRGYHIRVMDGWALSLDSKSRERILSFISASEI 179
           DAKE+ARDTLIVLKE+ GFE VHV+YSGRGYHIRV+D W    D K+RE+IL+++SA+E 
Sbjct: 124 DAKELARDTLIVLKEDFGFESVHVIYSGRGYHIRVLDDWRWPSDGKAREKILAYVSAAE- 182

Query: 180 EDHSEFRKMLLERRGWFVLNHGYPRVFRLRFGYFILRVKVEHLINFGIRKNIAKRILDNK 239
               +++K +   +   +L+ GY RVFR+RFGYF+ R+   HL NFG+ +   K +L+N 
Sbjct: 183 --ELDYKKDVQSNK--IMLSSGYYRVFRIRFGYFLKRISENHLRNFGLSEKQIKDVLENI 238

Query: 240 ETIYEEFV--RKGILAAFPD--------GVGIESLAKLFALSTRFSKAYFDGRVTVDLKR 289
           + IY +FV   K    AFP         G+    L  L   S+ FSKAYFDGRVTVD+KR
Sbjct: 239 DKIYNDFVLNAKSPNIAFPSSLRRPPKKGLHKSGLMILLNSSSTFSKAYFDGRVTVDVKR 298

Query: 290 ILRLPSTLHSKVGLIAKYIGNNERDVMRFNPFKHAVPKFRRKEVKEEYKRFLEEN 344
           ILRLPS+LHSKVG I  YIG +E  + RFNPF+ AVP+FRR+EV+E Y+ +LEE+
Sbjct: 299 ILRLPSSLHSKVGFITTYIGPDEGKLERFNPFEDAVPRFRREEVREAYRLWLEEH 353


>sp|O26685|PRIM_METTH PUTATIVE DNA PRIMASE >gi|7482226|pir||E69177 conserved hypothetical
           protein MTH585 - Methanobacterium thermoautotrophicum
           (strain Delta H) >gi|2621663|gb|AAB85091.1| (AE000840)
           DNA primase, small subunit [Methanobacterium
           thermoautotrophicum]
           Length = 323
           
 Score =  233 bits (589), Expect = 2e-60
 Identities = 131/332 (39%), Positives = 188/332 (56%), Gaps = 22/332 (6%)

Query: 2   LLREVTKEERKEFYSNEWNAKQIPDFILQNLDKREFGFDHTGEGPSDRKNSYTDVRDLED 61
           +    T  ERK +Y  EWN + +PDFI  NL  REFGFDH G GPSDR   + D R L  
Sbjct: 4   MFEPATPLERKRYYREEWNVRDLPDFIADNLHMREFGFDHNGRGPSDRYRVFRDERSLAR 63

Query: 62  YIKATAPYAVYSSVAFYEKPQEMEGWLGAELVFDIDAKDLPLRRCNHEPGKVCPICLNDA 121
           +++   P+A YSSVAFY +P + +GW  +EL+FD+DAKDLP+R C  E   VCP CL++A
Sbjct: 64  FMRVRYPFAAYSSVAFYREPWKRKGWQRSELIFDVDAKDLPVRSC--ECDGVCPTCLDEA 121

Query: 122 KEIARDTLIVLKEELGFEDVHVVYSGRGYHIRVMDGWALSLDSKSRERILSFISASEIED 181
           +E+    +  LK +LG  D+HV+YSGRGYH+RV+D   + L S+ R  IL + + +    
Sbjct: 122 RELVLMMVDTLKGDLGLGDIHVIYSGRGYHVRVLDPEVMELGSEVRAEILRYTAGAR--- 178

Query: 182 HSEFRKMLLERRGWFVLNH-----GYPRVFRLRFGYFILRVKVEHLINFGIRKNIAKRIL 236
             E R+   +    + + H     GY RVF  R  + +L ++ +  I   +     K  +
Sbjct: 179 --EPRRKFTDGVSSYEMEHFSIPLGYHRVFTERARHVLLHLRGDEDIE-DVTARTVKTAV 235

Query: 237 DNKETIYEEFVRKGILAAFPDGVGIESLAKLFALSTRFSKAYFDGRVTVDLKRILRLPST 296
            N+  I E+  R G    F   +G     +L    ++ +    D +VT+DLKRILRLP++
Sbjct: 236 RNRNLILED--RWG---EFRSVIGPRVYPRLVKGISKINMRMLDAKVTIDLKRILRLPTS 290

Query: 297 LHSKVGLIAKYIGNNERDVMRFNPFKHAVPKF 328
           LHSKV +I   + N E     F+P K AVP+F
Sbjct: 291 LHSKVSMICMEVKNPE----TFDPLKSAVPRF 318


>gi|11498348 DNA primase, putative [Archaeoglobus fulgidus]
           >gi|8928289|sp|O29516|PRIM_ARCFU PUTATIVE DNA PRIMASE
           >gi|7483287|pir||F69342 DNA primase homolog -
           Archaeoglobus fulgidus >gi|2649873|gb|AAB90500.1|
           (AE001054) DNA primase, putative [Archaeoglobus
           fulgidus]
           Length = 360
           
 Score =  109 bits (270), Expect = 5e-23
 Identities = 99/333 (29%), Positives = 152/333 (44%), Gaps = 57/333 (17%)

Query: 1   MLLREVTKEERKEFYSNEWNAKQIPDFILQNLDKREFGFDHTGEGPS---DRKNSYTDVR 57
           ML +   K++ +E+YS   N  ++P    +    REF F      P     R  S+    
Sbjct: 26  MLTKLFLKKKFEEYYSK--NEVELP----RKFKNREFAFVPLELLPDFVMHRHISFRSET 79

Query: 58  DLEDYIKATAPYAVYSSVAFYEKP----QEMEGWLGAELVFDIDAKDLPLRRCNHEPGKV 113
           D   YI +  P  +Y S A+YE+P     E +GWLGA+L+FDIDA  LP++  + E    
Sbjct: 80  DFRAYILSNVPAHIYFSSAYYERPAEDKMENKGWLGADLIFDIDADHLPVKAQSFEK--- 136

Query: 114 CPICLNDAKEIARDTLIVLKEELGFEDVHVVYS-GRGYHIRVMDGWALSLDSKSRERILS 172
               L  AK   +    VL+ + G  D+ + +S GRGYH+ V D   LSL S  R  I+ 
Sbjct: 137 ---ALEMAKREIKKLTAVLRADFGIRDMKIYFSGGRGYHVHVHDEEFLSLGSAERREIVD 193

Query: 173 FISASEIEDHSEFRKMLLERRGWFVLNHGYPRVFRLRFGYFILRVKVEHLINFGIRKNIA 232
           ++  +         K+++E R  F  ++   RV         LR K+E        + + 
Sbjct: 194 YLRLNS-------PKIVVEDR--FANSNAAKRVLN------YLRKKLEE------DERLT 232

Query: 233 KRILDNKETIYEEFVRKGILAAFPDGVGIESLAKLFALSTRFSKAYFDGRVTVDLKRILR 292
            ++      + +E + K ++ A      +E      ALS      Y D  VT D+KR++R
Sbjct: 233 SKLKIKPADLKKEKLTKKVIRA------VEKF-DYSALS-----IYIDAPVTADVKRLIR 280

Query: 293 LPSTLHSKVGLIAKYIGNNERDVMRFNPFKHAV 325
           LP +LH K GL    +     D+  FNP K A+
Sbjct: 281 LPGSLHGKTGLRVTEV----EDIESFNPLKDAL 309


>gb|AAG19774.1| (AE005062) DNA primase; Pri [Halobacterium sp. NRC-1]
           Length = 424
           
 Score = 76.5 bits (185), Expect = 4e-13
 Identities = 80/319 (25%), Positives = 131/319 (40%), Gaps = 32/319 (10%)

Query: 33  DKREFGFDHTGEGPSD---RKNSYTDVRDLEDYIKATAPYAVYSSVAFYEKP----QEME 85
           D RE+G+     GP     R  S  D+  +  +++   P  VY S   Y+ P     + +
Sbjct: 62  DDREWGYIPWTAGPDTTMVRHKSTLDLGSMTSFLERKCPRHVYFSAGTYDAPGAATMDEK 121

Query: 86  GWLGAELVFDIDAKDLPLRRCNHEPGKVCPICLNDAKEIARDTLIVLKEELGFEDVHVVY 145
            W G++LVFD+DA  LP      +        L+  K+     L  L+ + GFE++ V +
Sbjct: 122 HWQGSDLVFDLDADHLPRVTLGEDSYAEM---LSKCKDALLRLLDFLERDFGFEELTVTF 178

Query: 146 SG-RGYHIRVMDGWALSLDSKSRERILSFISASEIEDHSEFRKMLLERRG--------WF 196
           SG RGYH+ V D     L S+ R  I+ ++  +++   +      +  RG          
Sbjct: 179 SGGRGYHVHVRDAGVYELGSEERREIVDYVRGNDLALETLVEAEPVGGRGLENPTEKRML 238

Query: 197 VLNHGYPRVFRLRFGYFILRV-------KVEHLINFGIRKNIAKRILDNKETIYEEFVRK 249
             + G+ R    R   F   +        V  L  F      + R + N        V++
Sbjct: 239 PADGGWGRRVTTRLEAFADDLIERGEDDAVATLTEFDGVGERSARAIYNVVADNTTAVKR 298

Query: 250 GILAAFPDGVGIESLAKLFALST-RFSKAYFDGRVTVDLKRILRLPSTLHSKVGLIAKYI 308
           G +   P      ++A+ +   T    +A  D  VT D  R++RLP +LH   GL  + +
Sbjct: 299 GNVDVHP---AFLTVARRYIDETVAAEQAPIDEPVTTDTNRLIRLPGSLHGGSGLEVQRL 355

Query: 309 GNNERDVMRFNPFKHAVPK 327
                D   F+P   AVP+
Sbjct: 356 DRAALD--DFDPLVDAVPE 372


  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
   0.323    0.142    0.420 

Gapped
Lambda     K      H
   0.270   0.0470    0.230 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 130099547
Number of Sequences: 2977
Number of extensions: 5557979
Number of successful extensions: 12276
Number of sequences better than 1.0e-10: 7
Number of HSP's better than  0.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 12259
Number of HSP's gapped (non-prelim): 9
length of query: 345
length of database: 189,106,746
effective HSP length: 53
effective length of query: 292
effective length of database: 157,386,935
effective search space: 45956985020
effective search space used: 45956985020
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.9 bits)
S2: 165 (68.7 bits)