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= 0025.0178.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...  1150   0.0  
gi|300311587|ref|YP_003775679.1| nuclease subunit of the excinuc...    56   7e-09

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

 Score = 1150 bits (2975), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 551/621 (88%), Positives = 586/621 (94%)

Query: 1   MSDIPSPSPVDPREIVLETVAKLPHLPGVYRYFDAEDNVLYVGKARDLKKRVSSYFQKTL 60
           MSD+P+    DPRE VLETVA+LPHLPGVYRYFDAEDNVLYVGKARDLKKRVSSYFQKTL
Sbjct: 1   MSDLPASPLPDPREAVLETVARLPHLPGVYRYFDAEDNVLYVGKARDLKKRVSSYFQKTL 60

Query: 61  SSPRIAMMVERIARLETTVTRSEAEALLLENNLIKTLRPRFNILFRDDKSYPYLKITGHA 120
           +SPRIAMMVERIARLETTVTRSEAEALLLENNLIKTLRPRFNILFRDDKSYPYLKITGHA
Sbjct: 61  TSPRIAMMVERIARLETTVTRSEAEALLLENNLIKTLRPRFNILFRDDKSYPYLKITGHA 120

Query: 121 YPRMAYYRGAVDKKNQYFGPFPNAWAVKESIQILQKVFLLRTCEDTVYANRTRPCLLHQI 180
           +PRMAYYRGAVDK+NQYFGPFPNA AVKESIQILQKVFLLRTCEDTV++NRTRPCLLHQI
Sbjct: 121 FPRMAYYRGAVDKRNQYFGPFPNAGAVKESIQILQKVFLLRTCEDTVFSNRTRPCLLHQI 180

Query: 181 HRCSGPCVKLISTEDYALDVENASKFLRGRQSEVLDALEKKMHAYAGELKFEQAAAVRNQ 240
           HRCSGPCV L+S EDYA+DVENASKFLRGRQSEV++ALE+KMHA+A +LKFEQAAAVR+Q
Sbjct: 181 HRCSGPCVNLVSREDYAIDVENASKFLRGRQSEVMEALEQKMHAFAADLKFEQAAAVRDQ 240

Query: 241 ITSLSSVLHQQTMETGGDADIDIIAVIVQGGRACVNLAMVRGGRHLGDRAYFPTHVDGAI 300
           I SLSSVLHQQ+MET  DADIDIIAV+VQGGRACVNLAMVRGGRHLGDRAYFPTHVD A+
Sbjct: 241 IGSLSSVLHQQSMETVSDADIDIIAVVVQGGRACVNLAMVRGGRHLGDRAYFPTHVDDAM 300

Query: 301 PDGEESIEAEVLKAFIAQHYIEKFIPGNLIVNTEFDDPALMLALMEQCGHRITLTLQPQG 360
              E+SI+ EVLKAF+AQHYI+KFIPG+LIV TEFDDPALM+ALMEQCGHRITLT QPQG
Sbjct: 301 DTAEDSIDVEVLKAFLAQHYIDKFIPGSLIVGTEFDDPALMMALMEQCGHRITLTFQPQG 360

Query: 361 QRRQWLEMAHKGGEIALARLLSEQGSQQARTRALVEALGTEVEDIEALRVECFDISHTQG 420
           QRRQWLEMA KG EIALARLLSEQGSQQARTRAL + L  E +D++ LR ECFDISHTQG
Sbjct: 361 QRRQWLEMAAKGAEIALARLLSEQGSQQARTRALADVLELERDDLDELRAECFDISHTQG 420

Query: 421 EATQASCVVFHHHAMQNGEYRRYNINDITPGDDYAAMRQVLTRRYEKVANGDGAMPDIVL 480
           EATQASCVVFHHHAMQNGEYRRYNINDITPGDDYAAMRQVLTRRYEKVANG+G MPDIVL
Sbjct: 421 EATQASCVVFHHHAMQNGEYRRYNINDITPGDDYAAMRQVLTRRYEKVANGEGVMPDIVL 480

Query: 481 IDGGKGQVEIARQVFTELGLDISLIVGVAKGEGRKVGLETLVFVDGRAPQELGKESAALM 540
           IDGGKGQVE ARQV TELGLDISLIVGVAKGEGRKVGLETLVF DGRAP+ELGKESAALM
Sbjct: 481 IDGGKGQVETARQVLTELGLDISLIVGVAKGEGRKVGLETLVFADGRAPKELGKESAALM 540

Query: 541 LIAQIRDEAHRFAITGMRAKRAKARQTSRLEEIEGIGAKRRQKLLARFGGLRGVADASID 600
           LIAQIRDEAHRFAITGMRAKRAKARQ+SRLEEIEGIGAKRRQ+LL RFGGLRGVADAS+D
Sbjct: 541 LIAQIRDEAHRFAITGMRAKRAKARQSSRLEEIEGIGAKRRQRLLVRFGGLRGVADASVD 600

Query: 601 ELASVEGISHTLAEEIYRQLH 621
           +LASVEGIS  LAEEIYRQLH
Sbjct: 601 DLASVEGISRQLAEEIYRQLH 621


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

 Score = 56.2 bits (134), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 55/211 (26%), Positives = 86/211 (40%), Gaps = 21/211 (9%)

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

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

Query: 131 VDKKNQYFGPFPNAWAVKESIQILQKVFLLRTCEDTVYANR--TRPCLLHQIHRCSGPCV 188
            ++  + FG + +  A +E++  L +   L +    +         C   QI RC G C 
Sbjct: 156 FNRAGKLFGLYTSERAAQEALHKLVEHHGLCSIATGLEQGEGPGMACFGRQIRRCRGACT 215

Query: 189 KLISTEDYALDVENASKFLRGRQSEVLDALE 219
              S E +              QS +L ALE
Sbjct: 216 GEESHEQH--------------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
   0.320    0.136    0.389 

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: 1,772,742
Number of extensions: 70706
Number of successful extensions: 261
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 260
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 (21.8 bits)
S2: 133 (55.8 bits)