RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

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



>gnl|CDD|144954 pfam01551, Peptidase_M23, Peptidase family M23.  Members of this
          family are zinc metallopeptidases with a range of
          specificities. The peptidase family M23 is included in
          this family, these are Gly-Gly endopeptidases.
          Peptidase family M23 are also endopeptidases. This
          family also includes some bacterial lipoproteins, for
          which no proteolytic activity has been demonstrated.
          This family also includes leukocyte cell-derived
          chemotaxin 2 (LECT2) proteins. LECT2 is a
          liver-specific protein which is thought to be linked to
          hepatocyte growth although the exact function of this
          protein is unknown.
          Length = 96

 Score = 82.2 bits (204), Expect = 2e-17
 Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 1/74 (1%)

Query: 2  VIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQ 61
          V++ G      GN ++I H +   T+Y+H+    V+ GQ+V  G  IG  G +G +  P 
Sbjct: 24 VVFAGYLGG-YGNLVIIDHGNGYETLYAHLSKILVKVGQRVKAGQVIGTVGSTGRSTGPH 82

Query: 62 VHFELRKNAIAMDP 75
          +HFE+RKN   +DP
Sbjct: 83 LHFEIRKNGKPVDP 96


>gnl|CDD|31082 COG0739, NlpD, Membrane proteins related to metalloendopeptidases
           [Cell envelope biogenesis, outer membrane].
          Length = 277

 Score = 76.7 bits (187), Expect = 1e-15
 Identities = 31/79 (39%), Positives = 48/79 (60%)

Query: 1   MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHP 60
           +V++ GN     GN ++I+H D  VTVY+H+ +  V++GQKV  G  IG  G +G +  P
Sbjct: 183 VVVFAGNGGWGYGNLVIIKHGDGYVTVYAHLSSILVKEGQKVKAGQVIGYVGSTGRSTGP 242

Query: 61  QVHFELRKNAIAMDPIKFL 79
            +HFE+RKN   + P+   
Sbjct: 243 HLHFEVRKNGKLVPPVNPA 261


>gnl|CDD|34550 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
           and chromosome partitioning].
          Length = 420

 Score = 60.7 bits (147), Expect = 8e-11
 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 1/81 (1%)

Query: 1   MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHP 60
            V+Y    L   G  +++ H     ++Y    +  V  GQ V  G  I L G SG    P
Sbjct: 341 RVVYAD-WLRGYGLVVILDHGGGYHSLYGGNQSILVNPGQFVKAGEPIALVGSSGGQGRP 399

Query: 61  QVHFELRKNAIAMDPIKFLEE 81
            ++FE+R+    ++P  +L  
Sbjct: 400 ALYFEIRRQGQPVNPQPWLRR 420


>gnl|CDD|110005 pfam00972, Flavi_NS5, Flavivirus RNA-directed RNA polymerase.
           Flaviviruses produce a polyprotein from the ssRNA
           genome. This protein is also known as NS5. This
           RNA-directed RNA polymerase possesses a number of short
           regions and motifs homologous to other RNA-directed RNA
           polymerases.
          Length = 649

 Score = 25.5 bits (56), Expect = 3.2
 Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 5/56 (8%)

Query: 8   DLVELGNTILIRHDDSIVT----VYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQH 59
           D++E+ N + I  D+  +     + S  D PY+ K Q +  G  IG   ++  A++
Sbjct: 561 DMLEVWNRVWI-QDNPWMQDKTPIESWRDVPYLGKRQDIWCGSLIGTKSRATWAKN 615


>gnl|CDD|176485 cd08664, APC10-HERC2, APC10-like DOC1 domain present in HERC2 (HECT
           domain and RLD2).  This model represents the APC10/DOC1
           domain present in HERC2 (HECT domain and RLD2), a large
           multi-domain protein with three RCC1-like domains
           (RLDs), additional internal domains including a zinc
           finger ZZ-type and Cyt-b5 (Cytochrome b5-like
           Heme/Steroid binding) domains, and a C-terminal HECT
           (Homologous to the E6-AP Carboxyl Terminus) domain. The
           APC10/DOC1 domain of HERC2 is a homolog of the APC10
           subunit and the DOC1 domain present in E3 ubiquitin
           ligases which mediate substrate ubiquitination (or
           ubiquitylation), a component of the ubiquitin-26S
           proteasome pathway for selective proteolytic
           degradation. As suggested by structural relationships
           between HERC2 and other proteins such as HERC1, the
           proposed role for HERC2 in protein trafficking and
           degradation pathways is consistent with observations
           that mutations in HERC2 lead to neuromuscular secretory
           vesicle and sperm acrosome defects, other developmental
           abnormalities, and juvenile lethality of jdf2 mice.
           Recent studies have shown that the protein complex,
           HERC2-RNF8, coordinates ubiquitin-dependent assembly of
           DNA repair factors on damaged chromosomes.
          Length = 152

 Score = 25.4 bits (56), Expect = 3.7
 Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 4/37 (10%)

Query: 2   VIYVG---NDLVELGNTILIRHDDSIVTVYSHIDTPY 35
           V+  G   N L EL  TI +   D++VT+   +   Y
Sbjct: 92  VVSGGDSLNSLKEL-KTINVNATDTLVTLLQDVKEYY 127


>gnl|CDD|34387 COG4774, Fiu, Outer membrane receptor for monomeric catechols
           [Inorganic ion transport and metabolism].
          Length = 750

 Score = 25.3 bits (55), Expect = 3.9
 Identities = 9/23 (39%), Positives = 12/23 (52%)

Query: 31  IDTPYVQKGQKVSRGHTIGLSGK 53
            D  Y Q G+K  RG  + +SG 
Sbjct: 590 DDGTYSQYGEKRVRGVELSVSGN 612


>gnl|CDD|35270 KOG0047, KOG0047, KOG0047, Catalase [Inorganic ion transport and
           metabolism].
          Length = 505

 Score = 24.5 bits (53), Expect = 6.0
 Identities = 10/38 (26%), Positives = 16/38 (42%)

Query: 27  VYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHF 64
           ++S   TP   +       HT  +  K G A + + HF
Sbjct: 196 LFSDRGTPDGYRHMNGYGSHTYKMVNKEGKAHYVKFHF 233


>gnl|CDD|38220 KOG3010, KOG3010, KOG3010, Methyltransferase [General function
          prediction only].
          Length = 261

 Score = 24.1 bits (52), Expect = 9.6
 Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 4/56 (7%)

Query: 33 TPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIAMDP----IKFLEEKIP 84
          T + +K    + GH +     +GN Q  +   E  K  IA D     +K  ++  P
Sbjct: 21 TDWFKKIASRTEGHRLAWDVGTGNGQAARGIAEHYKEVIATDVSEAMLKVAKKHPP 76


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.319    0.138    0.398 

Gapped
Lambda     K      H
   0.267   0.0779    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 986,014
Number of extensions: 40377
Number of successful extensions: 105
Number of sequences better than 10.0: 1
Number of HSP's gapped: 105
Number of HSP's successfully gapped: 14
Length of query: 84
Length of database: 6,263,737
Length adjustment: 54
Effective length of query: 30
Effective length of database: 5,096,851
Effective search space: 152905530
Effective search space used: 152905530
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 (22.9 bits)