RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= gi|254780683|ref|YP_003065096.1| lipoprotein [Candidatus
Liberibacter asiaticus str. psy62]
         (84 letters)



>1qwy_A Peptidoglycan hydrolase; LYTM lysostaphin metalloprotease
           asparagine switch; 1.30A {Staphylococcus aureus subsp}
           SCOP: b.84.3.2 PDB: 2b0p_A 2b13_A* 2b44_A
          Length = 291

 Score = 79.7 bits (196), Expect = 1e-16
 Identities = 27/86 (31%), Positives = 39/86 (45%), Gaps = 5/86 (5%)

Query: 2   VIYVGNDLVELGNTILIRHDDS-IVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHP 60
           V+  G      GN + I+  +S     Y H +   V  G KV  G  I  SG +GN+  P
Sbjct: 206 VVQAGWSNYGGGNQVTIKEANSNNYQWYMHNNRLTVSAGDKVKAGDQIAYSGSTGNSTAP 265

Query: 61  QVHFELRKNAI----AMDPIKFLEEK 82
            VHF+     I    A+DP  +L+ +
Sbjct: 266 HVHFQRMSGGIGNQYAVDPTSYLQSR 291


>2hsi_A Putative peptidase M23; structural genomics, PSI, protein structure
           initiative, NEW YORK SGX research center for structural
           genomics; 1.90A {Pseudomonas aeruginosa PAO1}
          Length = 282

 Score = 73.3 bits (179), Expect = 1e-14
 Identities = 20/71 (28%), Positives = 36/71 (50%)

Query: 14  NTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIAM 73
            T+ + H    ++++ H+    V+ GQ+V RG  +G  G +G A  P +H+ +  N   +
Sbjct: 212 KTVFVDHGQGFISMFCHLSKIDVKLGQQVPRGGVLGKVGATGRATGPHMHWNVSLNDARV 271

Query: 74  DPIKFLEEKIP 84
           DP  F+    P
Sbjct: 272 DPAIFIGAFQP 282


>3nyy_A Putative glycyl-glycine endopeptidase LYTM; structural genomics,
           joint center for structural genomics, J protein
           structure initiative, PSI; HET: MSE 2PE SO4; 1.60A
           {Ruminococcus gnavus}
          Length = 252

 Score = 70.1 bits (171), Expect = 1e-13
 Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 12/79 (15%)

Query: 13  GNTILIRHDDSIVTVYSHIDT-PYVQKGQKVSRGHTIGLSGKSGNAQH-------PQVHF 64
           G  I I         Y+H+D+   ++KG  V  G  +G  G SG  +          +H 
Sbjct: 160 GWRIGITAPTGAYFYYAHLDSYAELEKGDPVKAGDLLGYMGDSGYGEEGTTGEFPVHLHL 219

Query: 65  ELRKN----AIAMDPIKFL 79
            +        I+++P   L
Sbjct: 220 GIYLKEGTEEISVNPYPVL 238


>3csq_A Morphogenesis protein 1; hydrolase, infection, late protein; 1.80A
           {Bacteriophage phi-29}
          Length = 334

 Score = 68.6 bits (167), Expect = 4e-13
 Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 6/75 (8%)

Query: 2   VIYVG--NDLVELGNTILIRHDDSIVT----VYSHIDTPYVQKGQKVSRGHTIGLSGKSG 55
            ++ G  +  +   +   +   D  V     V  H        G+K+ +G  +G +G  G
Sbjct: 213 CVWRGDASAYLAWTSDKEVMCADGSVRYITWVNVHESPLPFDVGKKLKKGDLMGHTGIGG 272

Query: 56  NAQHPQVHFELRKNA 70
           N      HF +    
Sbjct: 273 NVTGDHWHFNVIDGK 287


>2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural genomics, PSI,
           protein structure initiative; 1.90A {Vibrio cholerae}
          Length = 361

 Score = 65.1 bits (157), Expect = 4e-12
 Identities = 25/67 (37%), Positives = 36/67 (53%)

Query: 13  GNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIA 72
           GN ++I H+    T Y H+D   V+KGQ V RG  I L+G +G    P +HFE+      
Sbjct: 263 GNYLVIEHNSVYKTRYLHLDKILVKKGQLVKRGQKIALAGATGRLTGPHLHFEVLVRNRP 322

Query: 73  MDPIKFL 79
           +D +K  
Sbjct: 323 VDAMKAD 329


>3it5_A Protease LASA; metallopeptidase, beta-protein, cell membrane, cell
           outer membrane, hydrolase, membrane, metal-binding;
           2.00A {Pseudomonas aeruginosa PAO1} PDB: 3it7_A*
          Length = 182

 Score = 48.7 bits (115), Expect = 3e-07
 Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 10/87 (11%)

Query: 2   VIYVGNDLVEL--GNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGL--------S 51
           V+      V +     + + H     T Y H+D   V  GQ+VS    +G+         
Sbjct: 51  VVAAHAGTVRVLSRCQVRVTHPSGWATNYYHMDQIQVSNGQQVSADTKLGVYAGNINTAL 110

Query: 52  GKSGNAQHPQVHFELRKNAIAMDPIKF 78
            + G++  P +HF L  N   +     
Sbjct: 111 CEGGSSTGPHLHFSLLYNGAFVSLQGA 137


>2hcn_A RNA-directed RNA polymerase (NS5); WEST-NIle virus RNA polymerase,
           structural genomics, marseilles structural genomics
           program @ AFMB, MSGP; 2.35A {Kunjin virus} PDB: 2hcs_A
           2hfz_A
          Length = 595

 Score = 29.0 bits (65), Expect = 0.26
 Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 3/50 (6%)

Query: 8   DLVELGNTILI---RHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKS 54
           D++E+ N + I      +    V    D PY  K + +  G  IG   ++
Sbjct: 503 DMLEVWNRVWIEENEWMEDKTPVEKWSDVPYSGKREDIWCGSLIGTRARA 552


>2j7u_A RNA dependent RNA polymerase; nucleoside binding site, flavivirus,
           high-throughput assay, viral protein; HET: PGE; 1.85A
           {Dengue virus} PDB: 2j7w_A*
          Length = 635

 Score = 27.8 bits (62), Expect = 0.58
 Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 8   DLVELGNTILIR---HDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKS 54
           D++ + N + I      +    V +  + PY+ K +    G  IGL+ ++
Sbjct: 543 DMLTVWNRVWIEENPWMEDKTPVTTWENVPYLGKREDQWCGSLIGLTSRA 592


>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
           acid synthase, acyl-carrier-protein, beta-ketoacyl
           reductase, beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 1688

 Score = 27.5 bits (60), Expect = 0.78
 Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 9/61 (14%)

Query: 31  IDTPYVQKGQKVSRG--HTIGLSGKSGNAQHPQVHFELRKNAIAMD-----PIKFLEEKI 83
           ++T  V+K   +     H + ++G S +A + QV  + R N I +D     P K +++  
Sbjct: 749 VETSEVRKAVSIETALEHKV-VNGNSADAAYAQVEIQPRAN-IQLDFPELKPYKQVKQIA 806

Query: 84  P 84
           P
Sbjct: 807 P 807


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 24.9 bits (54), Expect = 4.7
 Identities = 23/124 (18%), Positives = 33/124 (26%), Gaps = 69/124 (55%)

Query: 3   IYV-----GN------DLVELGNT--------I---------LIRHDDSIVTVYSH-ID- 32
           +       GN      +L +L  T        I         LIR       V++  ++ 
Sbjct: 156 LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI 215

Query: 33  ---------TP---Y-------------VQKGQ-----KVSRGHTIG-----LSGKSGNA 57
                    TP   Y             +Q        K+  G T G     L G +G  
Sbjct: 216 LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLL-GFTPGELRSYLKGATG-- 272

Query: 58  QHPQ 61
            H Q
Sbjct: 273 -HSQ 275


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.319    0.138    0.398 

Gapped
Lambda     K      H
   0.267   0.0517    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 712,053
Number of extensions: 26036
Number of successful extensions: 73
Number of sequences better than 10.0: 1
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 14
Length of query: 84
Length of database: 5,693,230
Length adjustment: 52
Effective length of query: 32
Effective length of database: 4,432,542
Effective search space: 141841344
Effective search space used: 141841344
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: 50 (23.5 bits)