RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254780882|ref|YP_003065295.1| site-specific tyrosine
recombinase XerC [Candidatus Liberibacter asiaticus str. psy62]
         (328 letters)



>1a0p_A Site-specific recombinase XERD; DNA binding, DNA
           recombination; 2.50A {Escherichia coli} (A:101-290)
          Length = 190

 Score =  107 bits (268), Expect = 2e-24
 Identities = 61/187 (32%), Positives = 92/187 (49%), Gaps = 7/187 (3%)

Query: 120 KKSNSLPRALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEALSLTPQ 179
           K    LP+ L+E Q   L+   L+        ++ R+ A+L +LY  GLR+SE + LT  
Sbjct: 2   KLPQRLPKDLSEAQVERLLQAPLIDQ-----PLELRDKAMLEVLYATGLRVSELVGLTMS 56

Query: 180 NIMDDQSTLRIQGKGDKIRIVPLLPSVRKAILEYYDLCPFDLNLNIQ--LPLFRGIRGKP 237
           +I   Q  +R+ GKG+K R+VPL       +  Y +     L   +   +        + 
Sbjct: 57  DISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQM 116

Query: 238 LNPGVFQRYIRQLRRYLGLPLSTTAHTLRHSFATHLLSNGGDLRSIQSILGHFRLSTTQI 297
                + R               + H LRH+FATHLL++G DLR +Q +LGH  LSTTQI
Sbjct: 117 TRQTFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQI 176

Query: 298 YTNVNSK 304
           YT+V ++
Sbjct: 177 YTHVATE 183


>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA
           complex; HET: PTR; 3.80A {Enterobacteria phage lambda}
           (A:167-356)
          Length = 190

 Score = 95.5 bits (236), Expect = 9e-21
 Identities = 29/199 (14%), Positives = 57/199 (28%), Gaps = 15/199 (7%)

Query: 120 KKSNSLPRALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEALSLTPQ 179
            KS      L   + L +            +         + L    G R+ +   +   
Sbjct: 5   AKSKVRRSRLTADEYLKIYQAA--------ESSPCWLRLAMELAVVTGQRVGDLCEMKWS 56

Query: 180 NIMDDQSTLRIQGKGDKIRIVPLLPSVRKAILEYYDLCPFDLNLNIQLPLFRGIRGKPLN 239
           +I+D    +     G K   +P    +    +   +       +     +    R +PL+
Sbjct: 57  DIVDGYLYVEQSKTGVK-IAIPTALHIDALGISMKETLDKCKEILGGETIIASTRREPLS 115

Query: 240 PGVFQRYIRQLRRYLGLPLSTTAHTLR--HSFATHLLSNGGDLRSIQSILGHFRLSTTQI 297
            G   RY  + R+  GL       T     S +  L       +  Q +LGH   +    
Sbjct: 116 SGTVSRYFMRARKASGLSFEGDPPTFHELRSLSARLYEKQISDKFAQHLLGHKSDTMASQ 175

Query: 298 YTNVNSKNGGDWMMEIYDQ 316
             +   +       +I  +
Sbjct: 176 XRDDRGRE----WDKIEIK 190


>1ae9_A Lambda integrase; DNA recombination, site-specific
           recombination; 1.90A {Bacteriophage lambda} (A:)
          Length = 179

 Score = 90.2 bits (222), Expect = 3e-19
 Identities = 21/179 (11%), Positives = 42/179 (23%), Gaps = 9/179 (5%)

Query: 127 RALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEALSLTPQNIMDDQS 186
             L   + L +            +         + L    G R+ +   +   +I+D   
Sbjct: 2   SRLTADEYLKIYQAA--------ESSPCWLRLAMELAVVTGQRVGDLCEMKWSDIVDGYL 53

Query: 187 TLRIQGKGDKIRIVPLLPSVRKAILEYYDLC-PFDLNLNIQLPLFRGIRGKPLNPGVFQR 245
            +     G KI I   L      I     L    ++     +                  
Sbjct: 54  YVEQSKTGVKIAIPTALHIDALGISMKETLDKCKEILGGETIIASTRREPLSSGTVSRYF 113

Query: 246 YIRQLRRYLGLPLSTTAHTLRHSFATHLLSNGGDLRSIQSILGHFRLSTTQIYTNVNSK 304
              +    L             S +  L       +  Q +LGH   +    + +   +
Sbjct: 114 MRARKASGLSFEGDPPTFHELRSLSARLYEKQISDKFAQHLLGHKSDTMASQFRDDRGR 172


>1z19_A Integrase; protein-DNA complex, DNA binding protein/DNA
           complex; HET: PTR; 2.80A {Enterobacteria phage lambda}
           PDB: 1p7d_A* (A:94-283)
          Length = 190

 Score = 88.6 bits (218), Expect = 1e-18
 Identities = 30/186 (16%), Positives = 48/186 (25%), Gaps = 12/186 (6%)

Query: 120 KKSNSLPRALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEALSLTPQ 179
            KS      L   + L +            +           L    G R+ +       
Sbjct: 5   AKSKVRRSRLTADEYLKIYQAA--------ESSPCWLRLAXELAVVTGQRVGDLCEXKWS 56

Query: 180 NIMDDQSTLRIQGKGDKIRIVPLLPSVRKAILEYYDLCPFDLNLNIQLPLFRGIRGKPLN 239
           +I+D    +     G KI I   L      I     L      L  +  +    R +PL+
Sbjct: 57  DIVDGYLYVEQSKTGVKIAIPTALHIDALGISXKETLDKCKEILGGE-TIIASTRREPLS 115

Query: 240 PGVFQRYI--RQLRRYLGLPLSTTAHTLRHSFATHLLSNGGDLRSIQSILGHFRLSTTQI 297
            G   RY    +    L             S +  L       +  Q +LGH   +    
Sbjct: 116 SGTVSRYFXRARKASGLSFEGDPPTFHELRSLSARLYEKQISDKFAQHLLGHKSDTXASQ 175

Query: 298 -YTNVN 302
              +  
Sbjct: 176 XRDDRG 181


>1xo0_A Recombinase CRE; CRE recombinase, holliday junction,
           recombination,complex (recombinase/DNA), hydrolase,
           ligase/DNA complex; 2.00A {Enterobacteria phage P1}
           (A:115-310)
          Length = 196

 Score = 75.4 bits (183), Expect = 1e-14
 Identities = 22/197 (11%), Positives = 46/197 (23%), Gaps = 26/197 (13%)

Query: 127 RALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEALSLTPQNIMDDQS 186
            A        +         +  +  D RN A L + Y   L+I+E   +  ++I     
Sbjct: 2   LAFERTDFDQVRS----LMENSDRCQDIRNLAFLGIAYNTLLKIAEIARIRVKDISRTDG 57

Query: 187 TLRIQGK-------GDKIRIVPLLPSVRKAILEYYDLCP---------------FDLNLN 224
              +                  L   V K +  +  +                   +   
Sbjct: 58  GRMLIHIGRTKTLVSTAGVEKALSLGVTKLVERWISVSGVADDPNNYLFCRVRKNGVAAP 117

Query: 225 IQLPLFRGIRGKPLNPGVFQRYIRQLRRYLGLPLSTTAHTLRHSFATHLLSNGGDLRSIQ 284
                      + +     +             L+ + H+ R   A  +   G  +  I 
Sbjct: 118 SATSQLSTRALEGIFEATHRLIYGAKDDSGQRYLAWSGHSARVGAARDMARAGVSIPEIM 177

Query: 285 SILGHFRLSTTQIYTNV 301
              G   ++    Y   
Sbjct: 178 QAGGWTNVNIVMNYIRN 194


>1xo0_A Recombinase CRE; CRE recombinase, holliday junction,
           recombination,complex (recombinase/DNA), hydrolase,
           ligase/DNA complex; 2.00A {Enterobacteria phage P1}
           (A:1-114)
          Length = 114

 Score = 70.8 bits (173), Expect = 2e-13
 Identities = 9/115 (7%), Positives = 38/115 (33%), Gaps = 7/115 (6%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
           +N +      +  S+ T +      R +  +                    ++R ++   
Sbjct: 6   KNLMDMFRDRQAFSEHTWKMLLSVCRSWAAWCK---LNNR---KWFPAEPEDVRDYLLYL 59

Query: 79  RTQKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKKSNSLPRALNEKQ 133
           + + +  +++++ L  +    +     +  ++SN +++   +       A    +
Sbjct: 60  QARGLAVKTIQQHLGQLNMLHRRSGLPRP-SDSNAVSLVMRRIRKENVDAGERAK 113


>2a3v_A Site-specific recombinase INTI4; protein-DNA complex,
           recombination; HET: DNA; 2.80A {Vibrio cholerae o1
           biovar eltor str} (A:95-144,A:243-320)
          Length = 128

 Score = 68.3 bits (167), Expect = 1e-12
 Identities = 32/82 (39%), Positives = 45/82 (54%), Gaps = 4/82 (4%)

Query: 238 LNPGVFQRYIRQLRRYLGLPLSTTAHTLRHSFATHLLSNGGDLRSIQSILGHFRLSTTQI 297
           +N  V Q+ +R+  +  G+  + T HTLRHSFATHLL  G D+R++Q  LGH  + TTQI
Sbjct: 50  VNETVLQKAVRRSAQEAGIEKTVTCHTLRHSFATHLLEVGADIRTVQEQLGHTDVKTTQI 109

Query: 298 YTNVNSKNGGDWMMEIYDQTHP 319
           YT+V           +      
Sbjct: 110 YTHVLD----RGASGVLSPLSR 127



 Score = 49.1 bits (117), Expect = 7e-07
 Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 11/57 (19%)

Query: 120 KKSNSLPRALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEALSL 176
           +    LP  L   +   L++            +D ++   + LLYG GLR+ E + L
Sbjct: 3   QLERKLPVVLTRDEIRRLLEI-----------VDPKHQLPIKLLYGSGLRLMECMRL 48


>1a0p_A Site-specific recombinase XERD; DNA binding, DNA
           recombination; 2.50A {Escherichia coli} (A:1-100)
          Length = 100

 Score = 65.7 bits (160), Expect = 8e-12
 Identities = 20/99 (20%), Positives = 43/99 (43%), Gaps = 6/99 (6%)

Query: 13  ELLKERQNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIR 72
           + L   + +L  L +E+ L++ TL +Y  D    + +L       +   T+      +++
Sbjct: 1   QDLARIEQFLDALWLEKNLAENTLNAYRRDLSMMVEWLH---HRGL---TLATAQSDDLQ 54

Query: 73  AFISKRRTQKIGDRSLKRSLSGIKSFLKYLKKRKITTES 111
           A +++R        S  R LS ++   +YL + K   + 
Sbjct: 55  ALLAERLEGGYKATSSARLLSAVRRLFQYLYREKFREDD 93


>1aih_A HP1 integrase; DNA integration, recombination; 2.50A
           {Bacteriophage HP1} (A:1-49,A:87-170)
          Length = 133

 Score = 63.4 bits (154), Expect = 4e-11
 Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 2/64 (3%)

Query: 243 FQRYIRQLRRYLGLPLST--TAHTLRHSFATHLLSNGGDLRSIQSILGHFRLSTTQIYTN 300
                        + L      H LRH+FA+H + NGG++  ++ ILGH  +  T  Y +
Sbjct: 54  AYESFENAVLRAEIELPKGQLTHVLRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAH 113

Query: 301 VNSK 304
               
Sbjct: 114 FAPS 117


>2kd1_A DNA integration/recombination/invertion protein; protein
           structure initiative, structural genomics, unknown
           function, PSI-2; HET: DNA; NMR {Bacillus cereus atcc
           14579} (A:)
          Length = 118

 Score = 58.1 bits (140), Expect = 2e-09
 Identities = 9/113 (7%), Positives = 41/113 (36%), Gaps = 9/113 (7%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
           ++W         +   T +  +      +I         +    + +L+   ++ +++  
Sbjct: 13  ESWFNTKR--HSVGIQTAKVLKGYLNSRIIPS-------LGNIKLAKLTSLHMQNYVNSL 63

Query: 79  RTQKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKKSNSLPRALNE 131
           R + +   ++++ +  I++ L++    ++ T++     +  K         + 
Sbjct: 64  RDEGLKRGTIEKIIKVIRNSLEHAIDLELITKNVAAKTKLPKADKEELEHHHH 116


>2a3v_A Site-specific recombinase INTI4; protein-DNA complex,
           recombination; HET: DNA; 2.80A {Vibrio cholerae o1
           biovar eltor str} (A:1-94)
          Length = 94

 Score = 52.6 bits (126), Expect = 7e-08
 Identities = 13/93 (13%), Positives = 38/93 (40%), Gaps = 10/93 (10%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
            +  + ++  R  +K T+++Y     +++ F           +    +   E+  F++  
Sbjct: 7   LSVREFMQ-TRYYAKKTIEAYLHWITRYIHFHN--------KKHPSLMGDKEVEEFLTYL 57

Query: 79  RTQ-KIGDRSLKRSLSGIKSFLKYLKKRKITTE 110
             Q K+  ++   +L+ +    K + K  ++ E
Sbjct: 58  AVQGKVATKTQSLALNSLSFLYKEILKTPLSLE 90


>2kkp_A Phage integrase; SAM-like domain, alpha-helical bundle,
           structural genomics, PSI-2, protein structure
           initiative; NMR {Moorella thermoacetica atcc 39073}
           (A:27-117)
          Length = 91

 Score = 51.8 bits (124), Expect = 1e-07
 Identities = 8/96 (8%), Positives = 31/96 (32%), Gaps = 7/96 (7%)

Query: 35  TLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKRRTQKIGDRSLKRSLSG 94
           T +SYE   R  +I         +    +++L   +I+   + +    +    ++     
Sbjct: 3   TWESYETVLRLHVIPT-------LGSIPLKKLQPADIQRLYASKLESGLSPTRVRYIHVV 55

Query: 95  IKSFLKYLKKRKITTESNILNMRNLKKSNSLPRALN 130
           +   +   ++  +  ++     +  +         +
Sbjct: 56  LHEAMSQARESGLLLQNPTEAAKPPRHPLEHHHHHH 91


>2kiw_A INT protein; alpha, structural genomics, PSI-2, protein
           structure initiative, northeast structural genomics
           consortium; NMR {Staphylococcus haemolyticus JCSC1435}
           (A:)
          Length = 111

 Score = 51.2 bits (122), Expect = 2e-07
 Identities = 10/115 (8%), Positives = 35/115 (30%), Gaps = 11/115 (9%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
            +WL+       +   ++++ E   +  +             + I+ +   + + F+   
Sbjct: 7   DDWLKQYA--NDVKVSSVRAREKAIQHAIERFN--------TKPIQTIKKHDYQRFVDDI 56

Query: 79  RTQKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKKSNSLPRALNEKQ 133
              +     +   ++      KY    ++        ++  KK  S+    +   
Sbjct: 57  S-AQYSKNYVDSIVASTNMIFKYAYDTRLIKAMPSEGIKRPKKKVSVELEHHHHH 110


>2kob_A Uncharacterized protein; alpha beta, structural genomics,
           PSI-2, protein structure initiative; NMR {Clostridium
           leptum dsm 753} (A:)
          Length = 108

 Score = 46.5 bits (110), Expect = 4e-06
 Identities = 17/109 (15%), Positives = 43/109 (39%), Gaps = 12/109 (11%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
           + +L++ E   G+S   L SY+   R  L  L         ++++ ++   +I++ I++ 
Sbjct: 9   EKFLKSKE-ADGVSVSQLNSYKNYCRNHLSPLY--------MKSLSEILPADIQSIINET 59

Query: 79  RTQKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKKSNSLPR 127
           +  K    +LK   +      +   + +    +    +R  K +     
Sbjct: 60  KLAK---NTLKAIRNTASQIFRLAIENRAIDFNPADYVRIPKIALEHHH 105


>2kkv_A Integrase; protein structure, PSI, nesgc, structural
           genomics, protein structure initiative, northeast
           structural genomics consortium; NMR {Salmonella enterica
           subsp} (A:)
          Length = 121

 Score = 46.1 bits (109), Expect = 7e-06
 Identities = 12/115 (10%), Positives = 29/115 (25%), Gaps = 10/115 (8%)

Query: 21  WLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKRRT 80
             +  E  +  S+            ++          I    IRQL  + + A I +   
Sbjct: 13  AREWHESNKRWSEDHRSRVLRYLELYI-------FPHIGSSDIRQLKTSHLLAPIKEVD- 64

Query: 81  QKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNL--KKSNSLPRALNEKQ 133
                   +R    + + ++Y  +      +   +M               +   
Sbjct: 65  TSGKHDVAQRLQQRVTAIMRYAVQNDYIDSNPASDMAGALSTTKARHYPLEHHHH 119


>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA
           complex; HET: PTR; 3.80A {Enterobacteria phage lambda}
           (A:75-166)
          Length = 92

 Score = 44.9 bits (106), Expect = 1e-05
 Identities = 14/92 (15%), Positives = 28/92 (30%), Gaps = 10/92 (10%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
             + + L   RG+ + TL +Y    +     L            +  ++  EI A ++  
Sbjct: 7   DRYEKILA-SRGIKQKTLINYMSKIKAIRRGLP--------DAPLEDITTKEIAAMLNGY 57

Query: 79  RTQKIGDRSLKRSLSGIKSFLKYLKKRKITTE 110
              +    S K   S +    +        T 
Sbjct: 58  I-DEGKAASAKLIRSTLSDAFREAIAEGHITT 88


>2key_A Putative phage integrase; protein structure, PSI, NESG,
           structural genomics, unknown function, protein structure
           initiative; NMR {Bacteroides fragilis nctc 9343} (A:)
          Length = 112

 Score = 44.9 bits (106), Expect = 1e-05
 Identities = 14/104 (13%), Positives = 36/104 (34%), Gaps = 11/104 (10%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
            ++++     R L   T + ++   R+F  +               +L+   +R ++   
Sbjct: 15  ASYMKTYS--RRLEIGTFRHHKSCMRKFKEYCE--------GLQFHELTEDFLRDYLIYM 64

Query: 79  RTQK-IGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKK 121
           +      D + +R+LS IK ++    K+         +      
Sbjct: 65  KKTLCNADSTAQRNLSTIKIYVSAAIKKGYMENDPFKDFGLEHH 108


>2oxo_A Integrase; DNA-binding protein, four-helix bundle, DNA
           binding protein; 2.00A {Unidentified phage} (A:)
          Length = 103

 Score = 44.5 bits (105), Expect = 2e-05
 Identities = 16/103 (15%), Positives = 33/103 (32%), Gaps = 10/103 (9%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
             + + L   RG+ + TL +Y    +     L            +  ++  EI A ++  
Sbjct: 8   DRYEKILA-SRGIKQKTLINYMSKIKAIRRGLP--------DAPLEDITTKEIAAMLNGY 58

Query: 79  RTQKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKK 121
              +    S K   S +    +        T +++   R  K 
Sbjct: 59  I-DEGKAASAKLIRSTLSDAFREAIAEGHITTNHVAATRAAKS 100


>2kj5_A Phage integrase; GFT NMR, PSI-2, NESG, structural genomics,
           protein structure initiative; NMR {Nitrosospira
           multiformis atcc 25196} (A:)
          Length = 116

 Score = 44.1 bits (104), Expect = 2e-05
 Identities = 10/107 (9%), Positives = 21/107 (19%), Gaps = 8/107 (7%)

Query: 21  WLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKRRT 80
             +  E                  + +          I    +  +    I   +     
Sbjct: 13  ADEYFERMIAGRWKHPNIVRSRIEKDIK-------PAIGSLKVEDVKPRHIDDVLKAVM- 64

Query: 81  QKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKKSNSLPR 127
           ++        +L  +K    Y  KR I   +             L  
Sbjct: 65  KRGAPSIANDTLRWLKRMFNYAIKRHIIEYNPAAAFDPGDAGGKLEH 111


>2khq_A Integrase; all-alpha, structural genomics, PSI-2, protein
           structure initiative, northeast structural genomics
           consortium; NMR {Staphylococcus saprophyticus subsp}
           (A:)
          Length = 110

 Score = 43.8 bits (103), Expect = 3e-05
 Identities = 11/113 (9%), Positives = 37/113 (32%), Gaps = 12/113 (10%)

Query: 9   IVSFELLKERQNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSY 68
           +++F     +  W +  +    +S+ T + YE   +                + ++ +  
Sbjct: 1   MITFADYFYQ--WYEVNK-LPHVSESTKRHYESAYKHIKDHFR--------HKLLKDIKR 49

Query: 69  TEIRAFISKRRTQKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKK 121
           TE + F+++         ++++  S I++            ++          
Sbjct: 50  TEYQKFLNEYG-LTHSYETIRKLNSYIRNAFDDAIHEGYVIKNPTYKAELHAS 101


>1z19_A Integrase; protein-DNA complex, DNA binding protein/DNA
           complex; HET: PTR; 2.80A {Enterobacteria phage lambda}
           PDB: 1p7d_A* (A:1-93)
          Length = 93

 Score = 42.5 bits (100), Expect = 7e-05
 Identities = 14/92 (15%), Positives = 28/92 (30%), Gaps = 10/92 (10%)

Query: 19  QNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKR 78
             + + L   RG+ + TL +Y    +     L            +  ++  EI A ++  
Sbjct: 8   DRYEKILA-SRGIKQKTLINYXSKIKAIRRGLP--------DAPLEDITTKEIAAXLNGY 58

Query: 79  RTQKIGDRSLKRSLSGIKSFLKYLKKRKITTE 110
              +    S K   S +    +        T 
Sbjct: 59  I-DEGKAASAKLIRSTLSDAFREAIAEGHITT 89


>2kj9_A Integrase; DNA_BRE_C superfamily, INTB, PSI-2, structural
           genomics, protein structure initiative; NMR
           {Pectobacterium atrosepticum} (A:)
          Length = 118

 Score = 41.8 bits (98), Expect = 1e-04
 Identities = 11/107 (10%), Positives = 30/107 (28%), Gaps = 8/107 (7%)

Query: 21  WLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKRRT 80
                  +   S+   +S       +L          I  + I +L   ++   I K   
Sbjct: 17  AKSWFATKTTWSEDYQRSVWTRLETYLF-------PDIGNKDIAELDTGDLLVPIKKIE- 68

Query: 81  QKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKKSNSLPR 127
           +        R      + ++Y  ++K+   +   ++    +      
Sbjct: 69  KLGYLEIAMRVKQYATAIMRYAVQQKMIRFNPAYDLEGAVQKLEHHH 115


>2kj8_A Putative prophage CPS-53 integrase; INTS, INTC, YFDB, DNA
           integration, DNA recombination, structural genomics,
           protein structure initiative; NMR {Escherichia coli
           k-12} (A:)
          Length = 118

 Score = 40.0 bits (93), Expect = 4e-04
 Identities = 7/107 (6%), Positives = 25/107 (23%), Gaps = 10/107 (9%)

Query: 21  WLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKRRT 80
           W +    ++  S              ++         I    I+ +   ++   I +   
Sbjct: 14  WYE--HKKQVWSVGYATELAKMFDDDIL-------PIIGGLEIQDIEPMQLLEVIRRFE- 63

Query: 81  QKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILNMRNLKKSNSLPR 127
            +       ++        +Y         +   ++ +  K      
Sbjct: 64  DRGAMERANKARRRCGEVFRYAIVTGRAKYNPAPDLADAMKGYRKKN 110


>2c42_A Pyruvate-ferredoxin oxidoreductase; 4Fe-4S, iron,
           iron-sulfur, iron-sulfur cluster, pyruvate catabolism,
           TPP-dependent enzyme; HET: TPP; 1.78A {Desulfovibrio
           africanus} (A:1-9,A:174-231,A:404-626)
          Length = 290

 Score = 28.9 bits (64), Expect = 1.0
 Identities = 8/56 (14%), Positives = 23/56 (41%)

Query: 60  IQTIRQLSYTEIRAFISKRRTQKIGDRSLKRSLSGIKSFLKYLKKRKITTESNILN 115
           IQ I  L Y ++ + ++++   +   +S+      ++   +         E+ + N
Sbjct: 15  IQKIEVLDYADMASLVNQKALAEFRAKSMNPEHPHVRGTAQNPDIYFQGREAAVDN 70


>2h1q_A Hypothetical protein; ZP_00559375.1, structural genomics,
           PSI-2, protein structure initiative; 2.01A
           {Desulfitobacterium hafniense dcb-2} (A:)
          Length = 270

 Score = 27.9 bits (62), Expect = 2.0
 Identities = 8/41 (19%), Positives = 16/41 (39%)

Query: 182 MDDQSTLRIQGKGDKIRIVPLLPSVRKAILEYYDLCPFDLN 222
            D     + + KG K+ +V   P +   +    DL   + +
Sbjct: 129 NDPFIXSQNEVKGKKVGVVGHFPHLESLLEPICDLSILEWS 169


>1rcw_A CT610, CADD; iron, DI-iron, redox enzyme, metallo enzyme,
           oxidoreductase, toxin; 2.50A {Chlamydia trachomatis}
           (A:)
          Length = 231

 Score = 27.0 bits (59), Expect = 3.5
 Identities = 3/30 (10%), Positives = 9/30 (30%)

Query: 225 IQLPLFRGIRGKPLNPGVFQRYIRQLRRYL 254
           ++   +       L     Q Y +    ++
Sbjct: 22  LEHTFYVKWSKGELTKEQLQAYAKDYYLHI 51


>1ohu_A Apoptosis regulator CED-9; BCL-2 family; 2.03A
           {Caenorhabditis elegans} (A:)
          Length = 175

 Score = 26.8 bits (59), Expect = 4.2
 Identities = 13/89 (14%), Positives = 23/89 (25%), Gaps = 14/89 (15%)

Query: 189 RIQGKGDKIRIVPLLPSVRKAILEYYDLCPFDLNLNIQLPLFRGIRGKPLNPGVFQRYIR 248
           RI+  G +    P LPS  +   E   +                      +   F+ +  
Sbjct: 24  RIRQNGXEWFGAPGLPSGVQPEHEXXRVXGTIFEKK--------------HAENFETFSE 69

Query: 249 QLRRYLGLPLSTTAHTLRHSFATHLLSNG 277
           QL     +  S     +R         + 
Sbjct: 70  QLLAVPRISFSLYQDVVRTVGNAQTDQSP 98


>2fa1_A Probable transcriptional regulator PHNF; PNHF, APC5558,
           effector binding domain, PSI, protein structure
           initiative, MCSG; HET: BDF; 1.70A {Escherichia coli}
           (A:)
          Length = 160

 Score = 26.6 bits (58), Expect = 4.7
 Identities = 11/100 (11%), Positives = 24/100 (24%), Gaps = 17/100 (17%)

Query: 91  SLSGIKSFLKYLKKRKITTESNILNMRNLKKSNSLPRALNEKQALTLVDNVLLHT----- 145
            ++    F + L  +     S  L       S  +  AL   +   ++    L       
Sbjct: 2   HMNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVA 61

Query: 146 -SHETKWI-----------DARNSAILYLLYGCGLRISEA 173
                 +                S   +L    G+ +  +
Sbjct: 62  LCLIDHYFADLTLWPTLQRFDSGSLHDFLREQTGIALRRS 101


>1rvx_A Hemagglutinin; viral protein; HET: SIA GAL NAG; 2.20A
           {Influenza a virus} (A:92-265)
          Length = 174

 Score = 26.4 bits (58), Expect = 5.0
 Identities = 20/104 (19%), Positives = 39/104 (37%), Gaps = 12/104 (11%)

Query: 17  ERQNWLQNLEIERGLSKLTL-QSYECDTRQFLIFLAFY-----TEEKITIQTIRQLSYTE 70
               WL     E+  S   L  SY     + ++ L        ++E+  +        + 
Sbjct: 58  RNLLWL----TEKEGSYPKLKNSYVNKKGKEVLVLWGIHHPPNSKEQQNLYQNENAYVSV 113

Query: 71  IRAFISKRRTQKIGDRSLKRSLSGIKSFLKYLKKR--KITTESN 112
           + +  ++R T +I +R   R  +G  ++   L K    I  E+N
Sbjct: 114 VTSNYNRRFTPEIAERPKVRDQAGRMNYYWTLLKPGDTIIFEAN 157


>1otv_A Coenzyme PQQ synthesis protein C; seven helix bundle, dimer,
           PQQ biosynthesis enzyme, biosynthetic protein; 2.10A
           {Klebsiella pneumoniae} (A:)
          Length = 259

 Score = 26.3 bits (57), Expect = 5.5
 Identities = 4/30 (13%), Positives = 7/30 (23%)

Query: 225 IQLPLFRGIRGKPLNPGVFQRYIRQLRRYL 254
           I  P    +          Q ++     Y 
Sbjct: 25  IHHPYHIAMHNGDATRKQIQGWVANRFYYQ 54


>3iac_A Glucuronate isomerase; IDP02065, structural genomics, center
           for structural genomics of infectious diseases, csgid;
           2.22A {Salmonella typhimurium} (A:28-49,A:143-237)
          Length = 117

 Score = 25.8 bits (57), Expect = 7.2
 Identities = 24/107 (22%), Positives = 43/107 (40%), Gaps = 19/107 (17%)

Query: 176 LTPQNIMDDQSTLRIQGKGDKIRIVPL------LPSVRKAILEYYDLCPFDLNLNIQ-LP 228
           L+PQ I DD+     +G   +  +  +      + S     LEY+     D +++I+  P
Sbjct: 12  LSPQEIADDRRAFSARGIXQQXNVRXVGTTDDPIDS-----LEYHRQIAADDSIDIEVAP 66

Query: 229 LFRGIRG-KPLNPGVFQRYIRQLRRYLGLPLST-----TAHTLRHSF 269
            +R  +  K    G F  Y+R+L     + ++       A T R   
Sbjct: 67  SWRPDKVFKIELDG-FVDYLRKLEAAADVSITRFDDLRQALTRRLDH 112


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.320    0.136    0.391 

Gapped
Lambda     K      H
   0.267   0.0689    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 2,348,841
Number of extensions: 101249
Number of successful extensions: 303
Number of sequences better than 10.0: 1
Number of HSP's gapped: 291
Number of HSP's successfully gapped: 41
Length of query: 328
Length of database: 4,956,049
Length adjustment: 89
Effective length of query: 239
Effective length of database: 1,947,404
Effective search space: 465429556
Effective search space used: 465429556
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: 55 (25.0 bits)