BLASTP 2.2.18 [Mar-02-2008]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0001.1809.p
         (621 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311266|ref|YP_003775358.1| excinuclease ABC subunit C [Her...  1247   0.0  
gi|300311587|ref|YP_003775679.1| nuclease subunit of the excinuc...    57   3e-09

>gi|300311266|ref|YP_003775358.1| excinuclease ABC subunit C
           [Herbaspirillum seropedicae SmR1]
          Length = 621

 Score = 1247 bits (3226), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 604/621 (97%), Positives = 616/621 (99%)

Query: 1   MSELPASPLPDPREVVLETVARLPHLPGVYRYFDADDNVLYVGKARDLKKRVSSYFQKTL 60
           MS+LPASPLPDPRE VLETVARLPHLPGVYRYFDA+DNVLYVGKARDLKKRVSSYFQKTL
Sbjct: 1   MSDLPASPLPDPREAVLETVARLPHLPGVYRYFDAEDNVLYVGKARDLKKRVSSYFQKTL 60

Query: 61  TSPRIAMMVERIARLETTVTRSEAEALLLENNLIKTLRPRFNILFRDDKSYPYLKLTGHA 120
           TSPRIAMMVERIARLETTVTRSEAEALLLENNLIKTLRPRFNILFRDDKSYPYLK+TGHA
Sbjct: 61  TSPRIAMMVERIARLETTVTRSEAEALLLENNLIKTLRPRFNILFRDDKSYPYLKITGHA 120

Query: 121 FPRMAYYRGAVDKRNQYFGPFPNAGAVKESIQILQKVFRLRTCEDTVFANRTRPCLLHQI 180
           FPRMAYYRGAVDKRNQYFGPFPNAGAVKESIQILQKVF LRTCEDTVF+NRTRPCLLHQI
Sbjct: 121 FPRMAYYRGAVDKRNQYFGPFPNAGAVKESIQILQKVFLLRTCEDTVFSNRTRPCLLHQI 180

Query: 181 HRCSGPCVNLVSSEDYAIDVENAAKFLRGRQSEVMQALEQKMHAFAADLKFEQAAAVRDQ 240
           HRCSGPCVNLVS EDYAIDVENA+KFLRGRQSEVM+ALEQKMHAFAADLKFEQAAAVRDQ
Sbjct: 181 HRCSGPCVNLVSREDYAIDVENASKFLRGRQSEVMEALEQKMHAFAADLKFEQAAAVRDQ 240

Query: 241 IGSLSSVLHQQSMETVSDADIDIIAVVVQGGRACVNLAMVRGGRHLGDRAYFPTHVDDAM 300
           IGSLSSVLHQQSMETVSDADIDIIAVVVQGGRACVNLAMVRGGRHLGDRAYFPTHVDDAM
Sbjct: 241 IGSLSSVLHQQSMETVSDADIDIIAVVVQGGRACVNLAMVRGGRHLGDRAYFPTHVDDAM 300

Query: 301 DTAEDSIEVEVLKAFLAQHYIDKFIPGSLIVGTEFDDPALMLALMEQCGHRIALTFQPQG 360
           DTAEDSI+VEVLKAFLAQHYIDKFIPGSLIVGTEFDDPALM+ALMEQCGHRI LTFQPQG
Sbjct: 301 DTAEDSIDVEVLKAFLAQHYIDKFIPGSLIVGTEFDDPALMMALMEQCGHRITLTFQPQG 360

Query: 361 QRRQWLEMAAKGAEIALARLLSEQGSQQARTRALAEVLELEREDLDELRAECFDISHTQG 420
           QRRQWLEMAAKGAEIALARLLSEQGSQQARTRALA+VLELER+DLDELRAECFDISHTQG
Sbjct: 361 QRRQWLEMAAKGAEIALARLLSEQGSQQARTRALADVLELERDDLDELRAECFDISHTQG 420

Query: 421 EATQASCVVFHHHAMQNGEYRRYNINDITPGDDYAAMRQVLTRRYEKVANGEGVMPDIVL 480
           EATQASCVVFHHHAMQNGEYRRYNINDITPGDDYAAMRQVLTRRYEKVANGEGVMPDIVL
Sbjct: 421 EATQASCVVFHHHAMQNGEYRRYNINDITPGDDYAAMRQVLTRRYEKVANGEGVMPDIVL 480

Query: 481 IDGGRGQVEMARQVLTELGLDISLIVGVAKGEGRKVGLETLVFADGRAPKELGKESAALM 540
           IDGG+GQVE ARQVLTELGLDISLIVGVAKGEGRKVGLETLVFADGRAPKELGKESAALM
Sbjct: 481 IDGGKGQVETARQVLTELGLDISLIVGVAKGEGRKVGLETLVFADGRAPKELGKESAALM 540

Query: 541 LIAQIRDEAHRFAITGMRAKRAKARQSSRLEEIEGIGAKRRQRLLVRFGGLRGVADASVD 600
           LIAQIRDEAHRFAITGMRAKRAKARQSSRLEEIEGIGAKRRQRLLVRFGGLRGVADASVD
Sbjct: 541 LIAQIRDEAHRFAITGMRAKRAKARQSSRLEEIEGIGAKRRQRLLVRFGGLRGVADASVD 600

Query: 601 ELASVEGISRQLAEEIYRQLH 621
           +LASVEGISRQLAEEIYRQLH
Sbjct: 601 DLASVEGISRQLAEEIYRQLH 621


>gi|300311587|ref|YP_003775679.1| nuclease subunit of the
           excinuclease complex protein [Herbaspirillum seropedicae
           SmR1]
          Length = 317

 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 57/212 (26%), Positives = 88/212 (41%), Gaps = 23/212 (10%)

Query: 12  PREVVLETVARLPHLPGVYRYFDADDNVLYVGKARDLKKRVSSYFQKTLTSPRIAMMVER 71
           P  +   ++  LP   GVY      D  LYVG++ +L+ RV ++            ++ R
Sbjct: 40  PLHIDRASIEALPSACGVYILRGEGDQALYVGRSVNLRSRVLAHLHHAEDQ----FLIGR 95

Query: 72  IARLETTVTRSEAEALLLENNLIKTLRPRFNILFRDDKSYPYLKLTGHAFPRMAYYRG-A 130
             R+E   T  E  A LLEN+L++ LRP  N   R  +    L+L     P +A      
Sbjct: 96  TRRIECLRTAGELGAALLENSLLRDLRPAHNKKQRAKRGLFTLRLDEQGQPLVAQVADHE 155

Query: 131 VDKRNQYFGPFPNAGAVKESIQILQKVFRLRTCEDTVFANRTRP---CLLHQIHRCSGPC 187
            ++  + FG + +  A +E++  L +   L +   T       P   C   QI RC G C
Sbjct: 156 FNRAGKLFGLYTSERAAQEALHKLVEHHGLCSIA-TGLEQGEGPGMACFGRQIRRCRGAC 214

Query: 188 VNLVSSEDYAIDVENAAKFLRGRQSEVMQALE 219
               S E +              QS ++QALE
Sbjct: 215 TGEESHEQH--------------QSRLLQALE 232


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.321    0.136    0.385 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,729,716
Number of extensions: 68417
Number of successful extensions: 258
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 256
Number of HSP's successfully gapped: 2
Length of query: 621
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 530
Effective length of database: 1,188,985
Effective search space: 630162050
Effective search space used: 630162050
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 133 (55.8 bits)