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= PAB2163 (rfA-like) DE:replication factor A related protein
         (375 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||B75220 replication factor A related protein PAB2163 - Pyroc...   743  0.0
pir||H71202 hypothetical protein PH1893 - Pyrococcus horikoshii ...   657  0.0
pir||F64444 hypothetical protein MJ1159 - Methanococcus jannasch...   114  2e-24
pir||C69051 replication factor A related protein - Methanobacter...    87  2e-16
gb|AAG18754.1| (AE004980) replication A related protein; Rpa [Ha...    73  5e-12

>pir||B75220 replication factor A related protein PAB2163 - Pyrococcus abyssi
           (strain Orsay) >gi|5457718|emb|CAB49209.1| (AJ248283)
           replication factor A related protein [Pyrococcus abyssi]
           Length = 375
           
 Score =  743 bits (1898), Expect = 0.0
 Identities = 375/375 (100%), Positives = 375/375 (100%)

Query: 1   MVNVKNRNILRYSKVVDMTVLTKDRIIEIIERKTGMSREEIEEEIRKIMEEDPYLSEQGA 60
           MVNVKNRNILRYSKVVDMTVLTKDRIIEIIERKTGMSREEIEEEIRKIMEEDPYLSEQGA
Sbjct: 1   MVNVKNRNILRYSKVVDMTVLTKDRIIEIIERKTGMSREEIEEEIRKIMEEDPYLSEQGA 60

Query: 61  AALLAERLGIDLIEKEEVSLMRISELYPGMDPREVNVVGRVLKKYPPREYTRKDGSVGRV 120
           AALLAERLGIDLIEKEEVSLMRISELYPGMDPREVNVVGRVLKKYPPREYTRKDGSVGRV
Sbjct: 61  AALLAERLGIDLIEKEEVSLMRISELYPGMDPREVNVVGRVLKKYPPREYTRKDGSVGRV 120

Query: 121 ASLIIYDDSGRARVVLWDAKVSEYYNKIEVGDVIKVLDAQVKESLSGLPELHINFRARII 180
           ASLIIYDDSGRARVVLWDAKVSEYYNKIEVGDVIKVLDAQVKESLSGLPELHINFRARII
Sbjct: 121 ASLIIYDDSGRARVVLWDAKVSEYYNKIEVGDVIKVLDAQVKESLSGLPELHINFRARII 180

Query: 181 LNPDDPRVEMIPPLEEVRVATYTRKKIKDIEAGDRFVEVRGTIAKVYRVLTYDACPECKK 240
           LNPDDPRVEMIPPLEEVRVATYTRKKIKDIEAGDRFVEVRGTIAKVYRVLTYDACPECKK
Sbjct: 181 LNPDDPRVEMIPPLEEVRVATYTRKKIKDIEAGDRFVEVRGTIAKVYRVLTYDACPECKK 240

Query: 241 KVDYDEGLGVWICPEHGEVQPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGVSPEEIAE 300
           KVDYDEGLGVWICPEHGEVQPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGVSPEEIAE
Sbjct: 241 KVDYDEGLGVWICPEHGEVQPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGVSPEEIAE 300

Query: 301 KIKELEESGLTTKEAARKLAEDEFYNIIGREIVVRGNVIEDRFLGLILRASSWEDVDYRR 360
           KIKELEESGLTTKEAARKLAEDEFYNIIGREIVVRGNVIEDRFLGLILRASSWEDVDYRR
Sbjct: 301 KIKELEESGLTTKEAARKLAEDEFYNIIGREIVVRGNVIEDRFLGLILRASSWEDVDYRR 360

Query: 361 EIERIKEELEKLGVM 375
           EIERIKEELEKLGVM
Sbjct: 361 EIERIKEELEKLGVM 375


>pir||H71202 hypothetical protein PH1893 - Pyrococcus horikoshii
           >gi|3258332|dbj|BAA31015.1| (AP000007) 361aa long
           hypothetical protein [Pyrococcus horikoshii]
           Length = 361
           
 Score =  657 bits (1676), Expect = 0.0
 Identities = 320/361 (88%), Positives = 347/361 (95%)

Query: 15  VVDMTVLTKDRIIEIIERKTGMSREEIEEEIRKIMEEDPYLSEQGAAALLAERLGIDLIE 74
           ++DM VLTK++IIEIIE KTGMSRE+IEEEIR+IMEEDP+LSEQGAAALLAERLGIDLIE
Sbjct: 1   MIDMVVLTKEKIIEIIEEKTGMSREKIEEEIRRIMEEDPHLSEQGAAALLAERLGIDLIE 60

Query: 75  KEEVSLMRISELYPGMDPREVNVVGRVLKKYPPREYTRKDGSVGRVASLIIYDDSGRARV 134
           +EE SLM+IS+LYPGMDPREVN++GRVLKKYP REYT+KDGS+GRVASL+IYDDSGRARV
Sbjct: 61  REETSLMKISDLYPGMDPREVNIIGRVLKKYPVREYTKKDGSIGRVASLVIYDDSGRARV 120

Query: 135 VLWDAKVSEYYNKIEVGDVIKVLDAQVKESLSGLPELHINFRARIILNPDDPRVEMIPPL 194
           VLWD KV+EYYNKIEVGDVIKVLDAQV+ESLSGLPELHINFRARIILNP+DPRV+ IPPL
Sbjct: 121 VLWDGKVAEYYNKIEVGDVIKVLDAQVRESLSGLPELHINFRARIILNPEDPRVDSIPPL 180

Query: 195 EEVRVATYTRKKIKDIEAGDRFVEVRGTIAKVYRVLTYDACPECKKKVDYDEGLGVWICP 254
           EEVR+ATYTRKKI DIE GDRF+E+RGTIAKVYRVLTYDACPECKKKVDYD G GVWICP
Sbjct: 181 EEVRIATYTRKKIGDIEPGDRFIEIRGTIAKVYRVLTYDACPECKKKVDYDPGTGVWICP 240

Query: 255 EHGEVQPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGVSPEEIAEKIKELEESGLTTKE 314
           EHGEV+PIKMTILDFGLDDGTGYIRVTLFGDDAEELLGVS EEIAEKIKELE SGLTTKE
Sbjct: 241 EHGEVEPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGVSSEEIAEKIKELENSGLTTKE 300

Query: 315 AARKLAEDEFYNIIGREIVVRGNVIEDRFLGLILRASSWEDVDYRREIERIKEELEKLGV 374
           AARKLAE+EFY IIG+EIVVRGNVIEDRFLGLILRASSWE+VDYR+EIE IKEELEKLGV
Sbjct: 301 AARKLAEEEFYKIIGKEIVVRGNVIEDRFLGLILRASSWEEVDYRKEIENIKEELEKLGV 360

Query: 375 M 375
           M
Sbjct: 361 M 361


>pir||F64444 hypothetical protein MJ1159 - Methanococcus jannaschii
           >gi|1500014|gb|AAB99162.1| (U67558) replication factor A
           related protein [Methanococcus jannaschii]
           Length = 645
           
 Score =  114 bits (282), Expect = 2e-24
 Identities = 97/297 (32%), Positives = 161/297 (53%), Gaps = 43/297 (14%)

Query: 77  EVSLMRISELYP-GMDPREVNVVGRVLKKYPPREYTRKDGSVGRVASLIIYDDSGRARVV 135
           E+   +I ++Y   +D  ++N++ +V++ Y   E   +D  V +V +L++ D +GR R+ 
Sbjct: 389 ELKYCKIEDIYNRDVDWNDINLIAQVVEDYGVNEIEFED-KVRKVRNLLLEDGTGRIRLS 447

Query: 136 LWDAKVSEYYNKIEVGDVIKVLDAQVKESLSGLPELHINFRARIILNPDDPRVEMIPPLE 195
           LWD  ++E   +I+ GD++++L A  KE    + +L I    RII+NP           E
Sbjct: 448 LWD-DLAEI--EIKEGDIVEILHAYAKERGDYI-DLVIGKYGRIIINP-----------E 492

Query: 196 EVRVATYTRKKIKDIEAGDRFVEVRGTIAKVYR-VLTYDACPECKKKVDYDEGLGVWICP 254
            V + T  RK I DIE G+  VEVRG + K+    L    CP C+K+V   +G  ++ CP
Sbjct: 493 GVEIKT-NRKFIADIEDGET-VEVRGAVVKILSDTLFLYLCPNCRKRVVEIDG--IYNCP 548

Query: 255 EHGEVQPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGVSPEEIAEKIKELEESGLTTKE 314
             G+V+P ++  L+F +DDGTG +    +    E++L ++ EE+              K 
Sbjct: 549 ICGDVEPEEILRLNFVVDDGTGTLLCRAYDRRVEKMLKMNREEL--------------KN 594

Query: 315 AARKLAEDEFYNIIGREIVVRGNV-IEDRFLGLILRASSWEDVDYRREIERIKEELE 370
              ++ EDE   I+G E V+ GNV +E+  L +++R  +  DVD  +EI RI EE+E
Sbjct: 595 LTIEMVEDE---ILGEEFVLYGNVRVENDELIMVVRRVN--DVDVEKEI-RILEEME 645


>pir||C69051 replication factor A related protein - Methanobacterium
           thermoautotrophicum (strain Delta H)
           >gi|2622495|gb|AAB85862.1| (AE000901) replication factor
           A related protein [Methanobacterium thermoautotrophicum]
           Length = 622
           
 Score = 87.4 bits (213), Expect = 2e-16
 Identities = 64/220 (29%), Positives = 109/220 (49%), Gaps = 31/220 (14%)

Query: 75  KEEVSLMRISELYPGMDP-REVNVVGRVLKKYPPREYTRKDGSVGRVASLIIYDDSGRAR 133
           +E++  M+ISE+    D   EV+VVGR+     PRE+ R+DG+ G V S+ + D++G+ R
Sbjct: 401 REQMRPMKISEILEMEDEGEEVDVVGRIFSLSDPREFEREDGT-GIVRSMELADETGKIR 459

Query: 134 VVLWDAKVSEYYNKIEVGDVIKVLDAQVKESLSGLPELHINFRARIILNPDDPRVEMIPP 193
           + LWD K  +  N   +GD +++ +A+++  L  + EL      RI+ NP    +E +P 
Sbjct: 460 ISLWDEKAEKPMN---IGDAVRIENARIRLGLYSV-ELSAGRTTRIV-NPLPEDMEDLPS 514

Query: 194 LEEVRVATYTRKKIKDIEAGDRFVEVRGTIAKVYRVLTYDACPECKKKVDYDEGLGVWIC 253
            EE+    Y  KKI D+E  DR + +   +  ++    +                     
Sbjct: 515 FEELEEMLYQTKKIADLEEDDRNIRIIARVVDLFEPREF--------------------- 553

Query: 254 PEHGEVQPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGV 293
            + G+  P  +   +F   D TG IR +L+ D AE+ L +
Sbjct: 554 -QRGDGTPGLVRTAEFA--DDTGSIRASLWDDAAEKPLSI 590


 Score = 76.5 bits (185), Expect = 5e-13
 Identities = 61/215 (28%), Positives = 104/215 (48%), Gaps = 31/215 (14%)

Query: 80  LMRISELYPGMDPREVNVVGRVLKKYPPREYTRKDGSVGRVASLIIYDDSGRARVVLWDA 139
           L++I +L+   + R V V+G V K   P E+ R DG+ G V S+ I DD+G ARV LWD 
Sbjct: 289 LVKIGDLH---EMRNVTVMGLVTKVNDPVEFERNDGTTGSVKSIEIADDTGSARVTLWD- 344

Query: 140 KVSEYYNKIEVGDVIKVLDAQVK-ESLSGLPELHINFRARIILNPDDPRVEMIPPLEEVR 198
              +   KI  GD+I++  A V+ +  +    ++ NF  RI LNP+     ++  LEE R
Sbjct: 345 --EDTRIKINKGDIIRISGANVEFDDFNQSYRINTNFNTRITLNPESDGA-LLKVLEEYR 401

Query: 199 VATYTRKKIKDIEAGDRFVEVRGTIAKVYRVLTYDACPECKKKVDYDEGLGVWICPEHGE 258
                 K  + +E  D   EV   + +++ +          ++ + ++G G+        
Sbjct: 402 EQMRPMKISEILEMEDEGEEV-DVVGRIFSL-------SDPREFEREDGTGI-------- 445

Query: 259 VQPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGV 293
                  +    L D TG IR++L+ + AE+ + +
Sbjct: 446 -------VRSMELADETGKIRISLWDEKAEKPMNI 473


 Score = 74.5 bits (180), Expect = 2e-12
 Identities = 67/210 (31%), Positives = 98/210 (45%), Gaps = 23/210 (10%)

Query: 33  KTGMSREEIEEEIRKIMEE--------DPYLSEQGAAALLAERLGIDLIEKEEVSLMRIS 84
           K  +S EE EE I K  EE        D  ++      +L E+  + L EK E  +  IS
Sbjct: 13  KDRISPEEFEELIEKKKEELGDIGFMDDLTIASTVVDDILKEKNTM-LSEKPEHRMDTIS 71

Query: 85  ELYPGMDPREVNVVGRVLKKYPPREYTRKDGSVGRVASLIIYDDSGRARVVLWDAKVSEY 144
           +L  G    E  V GRV+K   PR +T + G  G++A++II DD+G  R V W   + + 
Sbjct: 72  KLEEGA---ETPVTGRVMKISSPRTFTTRKGREGKLANVIIADDTGELRAVFWTENI-KL 127

Query: 145 YNKIEVGDVIKVLDAQVKESLSGLPELHINFRARI-ILNPDDPRVEMIPPLEEVRVATYT 203
             K   GDVI++ D  ++    G  E H+  R+ + +L+P+D      P   E R     
Sbjct: 128 LKKFREGDVIRIKDVNIRGGFGGRKEAHLMPRSTVEVLDPED-----YPEFPEYREEI-- 180

Query: 204 RKKIKDIEAGDRFVEVRGTIAKVYRVLTYD 233
              I D+   D  V V   I  V RV T++
Sbjct: 181 -TPIGDLVEDDE-VNVIARITGVSRVRTFE 208


>gb|AAG18754.1| (AE004980) replication A related protein; Rpa [Halobacterium sp.
           NRC-1]
           Length = 474
           
 Score = 73.0 bits (176), Expect = 5e-12
 Identities = 69/257 (26%), Positives = 118/257 (45%), Gaps = 48/257 (18%)

Query: 65  AERLGIDLIEKEEVSLMRISELYPGMD----PREVNVVGRVLKKYPPREYTRKDGSVGRV 120
           A+ + +D  E+ +V   +I + Y   D      +V +VG VL     R + R DGS GRV
Sbjct: 148 ADEVELDADEQIDV---QIQDEYDAADLSLGVSDVTLVGEVLDTEAVRTFDRDDGSEGRV 204

Query: 121 ASLIIYDDSGRARVVLWDAKVSEYYNKIEVGDVIKVLDAQVKESLSGLPELHINFRARII 180
           ++L++ D++GR RV LWD + ++    ++ G V++++D  V+E   G  ELH+     + 
Sbjct: 205 SNLVVGDETGRVRVTLWDDQ-ADTATDLDAGAVVEIVDGYVRER-EGSLELHVGDTGAVT 262

Query: 181 LNPDDPRVEMIPPLEEVRVATYTRKKIKDIEAGDRFVEVRGTIAKVYRVLTYDACPECKK 240
             P D  V  +P    +           D    D   ++ G +  V    T+D       
Sbjct: 263 PVP-DADVSFVPDTTSI-----------DSLEQDDTADIAGVVRSVDPTRTFDR------ 304

Query: 241 KVDYDEGLGVWICPEHGEVQPIKMTILDFGLDDGTGYIRVTLFGDDAEELLGVSP-EEIA 299
               D+G         G+V+ ++       L D TG IRV L+G+ A+  L + P +E+A
Sbjct: 305 ----DDG-------SEGQVRNVR-------LQDDTGDIRVALWGEKAD--LDIGPGDEVA 344

Query: 300 EKIKELEESGLTTKEAA 316
               E+++      EA+
Sbjct: 345 ALDVEIQDGWQDDIEAS 361


  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
   0.317    0.140    0.390 

Gapped
Lambda     K      H
   0.270   0.0470    0.230 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 140860725
Number of Sequences: 2977
Number of extensions: 6162054
Number of successful extensions: 22022
Number of sequences better than 1.0e-10: 5
Number of HSP's better than  0.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 22000
Number of HSP's gapped (non-prelim): 16
length of query: 375
length of database: 189,106,746
effective HSP length: 58
effective length of query: 317
effective length of database: 154,394,500
effective search space: 48943056500
effective search space used: 48943056500
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.6 bits)
S2: 166 (69.1 bits)