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= 0045.0005.p
         (118 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|NP_391142.1| yurQ [Bacillus subtilis] >gi|3915567|sp|O32158|...   159   3e-38
ref|NP_656587.1| Exci_endo_N, Endo/excinuclease amino terminal d...   154   4e-37
ref|NP_832466.1| UvrC-like protein [Bacillus cereus ATCC 14579] ...   119   2e-26

>ref|NP_391142.1| yurQ [Bacillus subtilis]
 sp|O32158|YURQ_BACSU Hypothetical protein yurQ
 pir||H70018 hypothetical protein yurQ - Bacillus subtilis
 emb|CAB15252.1| yurQ [Bacillus subtilis subsp. subtilis str. 168]
          Length = 124

 Score =  159 bits (401), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 79/124 (63%), Positives = 96/124 (77%), Gaps = 6/124 (4%)

Query: 1   MISITIPAPDVTIMKQEN------PVLSHIYGFTDFHLITREKGGIFMFYNDKDELLFVG 54
           MI I IPAP+VTI +++       P +  I+GF DFH I R+KGGIFMFYN  DELLFVG
Sbjct: 1   MIKIDIPAPNVTITERQQSANDNEPKIKPIHGFIDFHQIPRDKGGIFMFYNIHDELLFVG 60

Query: 55  KARKLRPRIKKHFEDNVSVMKPHRDEVAKIEVCIIDDAVDREIYETYIVNKLRAKYNVEK 114
           KARKLR RIKKHFED VS +K HRDEV KIEVC++DD ++REIYETYI+N   +KYN++K
Sbjct: 61  KARKLRQRIKKHFEDTVSPIKHHRDEVYKIEVCVVDDPMEREIYETYIINTQHSKYNIDK 120

Query: 115 VLYK 118
           V +K
Sbjct: 121 VFFK 124


>ref|NP_656587.1| Exci_endo_N, Endo/excinuclease amino terminal domain [Bacillus
           anthracis A2012]
 ref|NP_845060.1| endo/excinuclease amino terminal domain protein [Bacillus anthracis
           str. Ames]
 ref|NP_979038.1| endo/excinuclease amino terminal domain protein [Bacillus cereus
           ATCC 10987]
 gb|AAP26546.1| endo/excinuclease amino terminal domain protein [Bacillus anthracis
           str. Ames]
 gb|AAS41646.1| endo/excinuclease amino terminal domain protein [Bacillus cereus
           ATCC 10987]
          Length = 126

 Score =  154 bits (390), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 77/124 (62%), Positives = 96/124 (77%), Gaps = 6/124 (4%)

Query: 1   MISITIPAPDVTI------MKQENPVLSHIYGFTDFHLITREKGGIFMFYNDKDELLFVG 54
           +I I+IP  DVTI      ++ + P ++ I GF DFHL  R+KGGIFMFYN  DELLFVG
Sbjct: 3   LIKISIPEVDVTITERKQVIRGDEPRITPINGFIDFHLFPRDKGGIFMFYNINDELLFVG 62

Query: 55  KARKLRPRIKKHFEDNVSVMKPHRDEVAKIEVCIIDDAVDREIYETYIVNKLRAKYNVEK 114
           KARK+R RIKKHFEDNVS +K HRDEV +I+ CI++D  +REIYETYI+N+ +AKYNV+K
Sbjct: 63  KARKIRQRIKKHFEDNVSPIKNHRDEVYRIDACIVEDPTEREIYETYIINEYKAKYNVDK 122

Query: 115 VLYK 118
           V YK
Sbjct: 123 VFYK 126


>ref|NP_832466.1| UvrC-like protein [Bacillus cereus ATCC 14579]
 gb|AAP09667.1| UvrC-like protein [Bacillus cereus ATCC 14579]
          Length = 111

 Score =  119 bits (298), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 59/101 (58%), Positives = 74/101 (73%), Gaps = 6/101 (5%)

Query: 1   MISITIPAPDVTI------MKQENPVLSHIYGFTDFHLITREKGGIFMFYNDKDELLFVG 54
           +I I IP  DV+I      +K + P+++ I GF DFHL  R+KGGIFMFYN  DELLFVG
Sbjct: 3   LIKINIPEADVSITERKQVIKGDEPIITPINGFIDFHLFPRDKGGIFMFYNINDELLFVG 62

Query: 55  KARKLRPRIKKHFEDNVSVMKPHRDEVAKIEVCIIDDAVDR 95
           KARK+R RIKKHFEDNVS +K HRDEV +I+ CI++D   +
Sbjct: 63  KARKIRQRIKKHFEDNVSPIKNHRDEVYRIDACIVEDPTGK 103


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.324    0.142    0.410 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 180,362,685
Number of extensions: 7121695
Number of successful extensions: 17960
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 18191
Number of HSP's successfully gapped: 5
Length of query: 118
Length of database: 757,237,578
Length adjustment: 83
Effective length of query: 35
Effective length of database: 531,884,361
Effective search space: 18615952635
Effective search space used: 18615952635
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 120 (50.8 bits)