RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780384|ref|YP_003064797.1| serralysin [Candidatus
Liberibacter asiaticus str. psy62]
         (665 letters)



>gnl|CDD|117125 pfam08548, Peptidase_M10_C, Peptidase M10 serralysin C terminal.
           Serralysins are peptidases related to mammalian matrix
           metallopeptidases (MMPs). The peptidase unit is found at
           the N terminal while this domain at the C terminal forms
           a corkscrew and is thought to be important for secretion
           of the protein through the bacterial cell wall. This
           domain contains the calcium ion binding domain
           pfam00353.
          Length = 220

 Score = 71.2 bits (175), Expect = 7e-13
 Identities = 41/108 (37%), Positives = 62/108 (57%), Gaps = 12/108 (11%)

Query: 216 SPFIQTIYDSGGDDLLDLTLIGGVKNY-IDLNTESWSSIGGYEKNMTIAQHTVIESVVGS 274
              I +++D+GG+D  D +  G  +N  I+LN  S+S +GG + N++IA    IE+ +G 
Sbjct: 30  DKLIFSVWDAGGNDTFDFS--GFSQNQRINLNEGSFSDVGGLKGNVSIAAGVTIENAIGG 87

Query: 275 SGNDVVIGNSANNVFFESSGNDV---------FDGSSGLDTFFYYAPS 313
           SGND++IGN A N+    +GND+           G +G DTF Y A S
Sbjct: 88  SGNDLLIGNDAANILKGGAGNDIIYGGGGADQLWGGAGKDTFVYGAAS 135


>gnl|CDD|128531 smart00235, ZnMc, Zinc-dependent metalloprotease.  Neutral zinc
           metallopeptidases. This alignment represents a subset of
           known subfamilies. Highest similarity occurs in the
           HExxH zinc-binding site/ active site.
          Length = 140

 Score = 50.0 bits (120), Expect = 2e-06
 Identities = 35/121 (28%), Positives = 50/121 (41%), Gaps = 20/121 (16%)

Query: 23  WSNYFIRYKPDVLTTHRLSFDITELNPNAQEVARWALGEWSKVVDLTFEETSIHSDIK-- 80
           W    + Y   V+ +  LS +        +E    A  EWS V  L F E +  +DI   
Sbjct: 5   WPKGTVPY---VIDSSSLSPE------EVREAIARAFAEWSDVTCLRFVERTSTADIYIS 55

Query: 81  FISSNNGYVCTPRYDSRYFMEINFDKADVWRYGIGKGTILSHNALHEIGHALGLMHPGSY 140
           F   +    CT  +  R   + +F         +G G I +  A HE+GHALGL H  S 
Sbjct: 56  FGKGDGSG-CTLSHAGRPGGDQHFS--------LGNGCINTGVAAHELGHALGLYHEQSR 106

Query: 141 N 141
           +
Sbjct: 107 S 107


>gnl|CDD|152431 pfam11996, DUF3491, Protein of unknown function (DUF3491).  This
           family of proteins is functionally uncharacterized. This
           protein is found in bacteria. Proteins in this family
           are typically between 286 to 3225 amino acids in length.
           This protein is found associated with pfam04488. This
           protein is found associated with pfam04488.
          Length = 934

 Score = 31.6 bits (72), Expect = 0.63
 Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 6/61 (9%)

Query: 255 GYE-KNMTIAQHTVIESVVGSS-GNDVVIGNSANNVFFESSGNDVFDGSSGLDTFFYYAP 312
           G E K + I Q     ++VGSS G D + GN  +  F+ SSG       SG    +Y+ P
Sbjct: 117 GTEIKVLKITQ-KGFNTIVGSSEGYDTLTGNK-DTKFYLSSGGGTI--YSGGGKNWYHIP 172

Query: 313 S 313
            
Sbjct: 173 K 173


>gnl|CDD|152479 pfam12044, Metallopep, Putative peptidase family.  This family of
           proteins is functionally uncharacterized. However, it
           does contain an HEXXH motif characteristic of
           metallopeptidases. This protein is found in bacteria and
           eukaryotes. Proteins in this family are typically
           between 625 to 773 amino acids in length.
          Length = 419

 Score = 31.2 bits (71), Expect = 0.80
 Identities = 15/36 (41%), Positives = 17/36 (47%), Gaps = 5/36 (13%)

Query: 125 LHEIGHALGLMHPGSYNGGYPVYGVDNDYENDSFLT 160
           LHEIGH  GL H    +G   +     D  N SF T
Sbjct: 318 LHEIGHLFGLPH--QEDG---IMLRGYDTLNRSFTT 348


>gnl|CDD|185272 PRK15374, PRK15374, pathogenicity island 1 effector protein SipB;
           Provisional.
          Length = 593

 Score = 31.1 bits (70), Expect = 0.94
 Identities = 27/117 (23%), Positives = 47/117 (40%), Gaps = 13/117 (11%)

Query: 181 ATPMVSDIVAVQKIYGAPKGSLGNNIYKI--EVQQKDSPFIQTIYDSGGDDLLDLTLIGG 238
           A  MV+ IV V  +       LGN + K+  E  +K  P +       G  L       G
Sbjct: 416 AIAMVAVIVVVAVVGKGAAAKLGNALSKMMGETIKKLVPNVLKQLAQNGSKL----FTQG 471

Query: 239 VKNYIDLNTESWSSIGGYEKNMTIAQHTVIESVVGSSGNDVVIGNSANNVFFESSGN 295
           ++    +     S +G     M +  + + + +VG++ N V +G    N   +S+G 
Sbjct: 472 MQR---IT----SGLGNVGSKMGLQTNALSKELVGNTLNKVALGMEVTNTAAQSAGG 521


>gnl|CDD|171440 PRK12365, PRK12365, ribonucleotide-diphosphate reductase subunit
           alpha; Provisional.
          Length = 1046

 Score = 30.7 bits (69), Expect = 1.2
 Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 4/72 (5%)

Query: 519 RNPD-AFKALEYIAS--HEDLINAFADAPDLVQAGKDHFSNFGYEEGRSITFNPDLYLTS 575
           + PD AF A E +    +++ +       DL +A KDHF  +   EG +   NP+L    
Sbjct: 304 KEPDYAFVAAELLLDVVYKEALGKSKYDEDLEEAHKDHFKRY-ILEGDTYRLNPELKHYD 362

Query: 576 YDDLWNVFGSDR 587
            D L       R
Sbjct: 363 LDALAEALDLSR 374


>gnl|CDD|179643 PRK03759, PRK03759, isopentenyl-diphosphate delta-isomerase;
           Provisional.
          Length = 184

 Score = 29.2 bits (66), Expect = 3.4
 Identities = 5/24 (20%), Positives = 11/24 (45%)

Query: 45  TELNPNAQEVARWALGEWSKVVDL 68
           + L PN  EV  +   + + ++  
Sbjct: 129 SALQPNPDEVMDYQWVDPADLLRA 152


>gnl|CDD|132281 TIGR03237, dnd_assoc_2, dnd system-associated protein 2.  cereus
           E33L, Hahella chejuensis KCTC 2396, and
           Pseudoalteromonas haloplanktis TAC12.
          Length = 1256

 Score = 29.1 bits (65), Expect = 4.1
 Identities = 13/33 (39%), Positives = 21/33 (63%)

Query: 476 EEGRFVTFDSYLYLGSYDDLRNVFGSDRGAAAR 508
           EEG+   FD++  + SYDD +  F  ++GAA +
Sbjct: 778 EEGQDTAFDNFARMASYDDFKTKFNLNKGAAQQ 810



 Score = 28.3 bits (63), Expect = 5.9
 Identities = 13/32 (40%), Positives = 21/32 (65%)

Query: 393 EGRDITFDSYLYLGSYDDLRNVFGSDRGAAAR 424
           EG+D  FD++  + SYDD +  F  ++GAA +
Sbjct: 779 EGQDTAFDNFARMASYDDFKTKFNLNKGAAQQ 810


>gnl|CDD|183756 PRK12799, motB, flagellar motor protein MotB; Reviewed.
          Length = 421

 Score = 28.5 bits (63), Expect = 4.9
 Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 2/47 (4%)

Query: 580 WNVFGSDRSAAAQHYITHGMKEGRALGISGMQFKSVMNLSEKSRDKA 626
           W +     +A+ +  +  G+ EG+ L + GM   S M L E++ D  
Sbjct: 210 WELSADRANASRRELLAGGLDEGKILRVVGM--ASTMRLKEQASDDP 254


>gnl|CDD|177898 PLN02256, PLN02256, arogenate dehydrogenase.
          Length = 304

 Score = 28.5 bits (64), Expect = 5.4
 Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 11/52 (21%)

Query: 586 DRSAAAQHYITHGMKEGRALGISGMQ--------FKSVMNLSEK-SRDKADL 628
           DR AA   +ITH +  GR LG   ++        +++++ L E  S D  DL
Sbjct: 208 DRYAAGSQFITHTV--GRILGKMELESTPINTKGYETLLRLVENTSSDSFDL 257


>gnl|CDD|184622 PRK14325, PRK14325, (dimethylallyl)adenosine tRNA
           methylthiotransferase; Provisional.
          Length = 444

 Score = 28.6 bits (65), Expect = 5.9
 Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 12/36 (33%)

Query: 529 YIASH-----EDLINAFADAPDL-------VQAGKD 552
           Y  SH     +DLI A+AD P L       VQ+G D
Sbjct: 236 YTTSHPRDFTDDLIEAYADLPKLVPFLHLPVQSGSD 271


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.319    0.137    0.412 

Gapped
Lambda     K      H
   0.267   0.0607    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 11,288,225
Number of extensions: 756174
Number of successful extensions: 1328
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1323
Number of HSP's successfully gapped: 22
Length of query: 665
Length of database: 5,994,473
Length adjustment: 100
Effective length of query: 565
Effective length of database: 3,833,673
Effective search space: 2166025245
Effective search space used: 2166025245
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 (21.7 bits)
S2: 60 (27.2 bits)