RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780730|ref|YP_003065143.1| hypothetical protein
CLIBASIA_03085 [Candidatus Liberibacter asiaticus str. psy62]
         (120 letters)



>gnl|CDD|185477 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase;
           Provisional.
          Length = 418

 Score = 30.8 bits (70), Expect = 0.096
 Identities = 13/65 (20%), Positives = 19/65 (29%), Gaps = 1/65 (1%)

Query: 53  ELDKGDVPPTKPGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPK-RIQSPAKNKK 111
           E+D G  PP    +     ++   +      A PT  P            +   PA   K
Sbjct: 117 EIDTGGAPPAAAPAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPTPPAAAKPPEPAPAAK 176

Query: 112 SYVKP 116
               P
Sbjct: 177 PPPTP 181


>gnl|CDD|150640 pfam09990, DUF2231, Predicted membrane protein (DUF2231).  This
          domain, found in various hypothetical bacterial
          proteins, has no known function.
          Length = 100

 Score = 29.1 bits (66), Expect = 0.29
 Identities = 10/27 (37%), Positives = 13/27 (48%)

Query: 21 YGLLASLVSVAIISAVSTLGDRMKGVY 47
           GL  SLV VA++     LG  +   Y
Sbjct: 71 SGLALSLVVVALLGVQGWLGGELVYRY 97


>gnl|CDD|183848 PRK13024, PRK13024, bifunctional preprotein translocase subunit
           SecD/SecF; Reviewed.
          Length = 755

 Score = 27.9 bits (63), Expect = 0.75
 Identities = 9/37 (24%), Positives = 19/37 (51%)

Query: 15  GATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTIS 51
           G  AI+ G++A ++  A+I     +   + G+   I+
Sbjct: 261 GQDAIDAGIIAGIIGFALIFLFMLVYYGLPGLIANIA 297


>gnl|CDD|130566 TIGR01502, B_methylAsp_ase, methylaspartate ammonia-lyase.  This
           model describes methylaspartate ammonia-lyase, also
           called beta-methylaspartase (EC 4.3.1.2). It follows
           methylaspartate mutase (composed of S and E subunits) in
           one of several possible pathways of glutamate
           fermentation.
          Length = 408

 Score = 26.4 bits (58), Expect = 1.7
 Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 11/69 (15%)

Query: 5   IIKKILKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTISTELDKGDVPPTKP 64
           + +K+  N +  TAI YG     VS A++ A +    R   + + I  E +    P  + 
Sbjct: 114 VFEKMTVNRNLHTAIRYG-----VSQALLDAAAKT--RKTTMAEVIRDEYN----PGAET 162

Query: 65  GSVPMQPES 73
            +VP+  +S
Sbjct: 163 NAVPVFAQS 171


>gnl|CDD|173181 PRK14718, PRK14718, ribonuclease III; Provisional.
          Length = 467

 Score = 26.3 bits (57), Expect = 1.8
 Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 7/66 (10%)

Query: 54  LDKGDVPPTKPGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQSPAKNKKSY 113
           LDKG+   +KP   P        +T  +PP K +  P   K+S+K+P +      +K S 
Sbjct: 361 LDKGEPRASKPAEKPA------AATD-KPPEKASDKPSPEKTSEKTPDKSHEKQLDKSSE 413

Query: 114 VKPNKS 119
               K+
Sbjct: 414 PVAEKA 419


>gnl|CDD|162310 TIGR01348, PDHac_trf_long, pyruvate dehydrogenase complex
           dihydrolipoamide acetyltransferase, long form.  This
           model describes a subset of pyruvate dehydrogenase
           complex dihydrolipoamide acetyltransferase specifically
           close by both phylogenetic and per cent identity (UPGMA)
           trees. Members of this set include two or three copies
           of the lipoyl-binding domain. E. coli AceF is a member
           of this model, while mitochondrial and some other
           bacterial forms belong to a separate model.
          Length = 546

 Score = 26.4 bits (58), Expect = 2.0
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 5/53 (9%)

Query: 57  GDVPPTKPGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQSPAKN 109
           G  P T P     QP + +P+     PA     P   K+   +P   Q+  +N
Sbjct: 193 GSTPATAPAPASAQPAAQSPAATQPEPAAA---PAAAKAQAPAP--QQAGTQN 240


>gnl|CDD|178158 PLN02543, PLN02543, pfkB-type carbohydrate kinase family protein.
          Length = 496

 Score = 26.0 bits (57), Expect = 2.2
 Identities = 14/60 (23%), Positives = 22/60 (36%), Gaps = 8/60 (13%)

Query: 56  KGDVPPTKPGSVP--------MQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQSPA 107
           K  + P+   S P          PES  PS R +     +S P    + +++ K  Q   
Sbjct: 38  KASLHPSIKRSRPGRCSTNGAAVPESPKPSRRGRKKKPTSSPPKAKTTRRRTKKTDQELD 97


>gnl|CDD|183727 PRK12757, PRK12757, cell division protein FtsN; Provisional.
          Length = 256

 Score = 25.4 bits (56), Expect = 3.4
 Identities = 8/57 (14%), Positives = 20/57 (35%)

Query: 63  KPGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQSPAKNKKSYVKPNKS 119
           +  +   QP ++    +   P + T+ PV+ ++      +  +P        K    
Sbjct: 122 QQQAQQQQPPATTAQPQPVTPPRQTTAPVQPQTPAPVRTQPAAPVTQAVEAPKVEAE 178


>gnl|CDD|184912 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
           Provisional.
          Length = 620

 Score = 25.3 bits (56), Expect = 3.6
 Identities = 12/47 (25%), Positives = 18/47 (38%)

Query: 60  PPTKPGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQSP 106
           PP  P   P     ++ +   Q PA  +  P   +    SP +  SP
Sbjct: 548 PPPTPPPPPPTATQASSNAPAQIPADSSPPPPIPEEPTPSPTKDSSP 594


>gnl|CDD|150740 pfam10100, DUF2338, Uncharacterized protein conserved in bacteria
          (DUF2338).  Members of this family of hypothetical
          bacterial proteins have no known function.
          Length = 429

 Score = 25.5 bits (56), Expect = 3.7
 Identities = 10/44 (22%), Positives = 19/44 (43%)

Query: 7  KKILKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTI 50
           K+L  G+G  AI+  +   L   A +        R K +++ +
Sbjct: 2  SKVLILGTGPVAIQLAVDLKLHGDARLGIAGRPSTRSKRLFEAL 45


>gnl|CDD|182271 PRK10153, PRK10153, DNA-binding transcriptional activator CadC;
           Provisional.
          Length = 517

 Score = 25.4 bits (56), Expect = 3.7
 Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 2/40 (5%)

Query: 61  PTKPGSVPMQPESSNPSTR--LQPPAKPTSIPVKTKSSKK 98
            + P      P ++ PS     Q PA P +  V    +K 
Sbjct: 118 SSPPPIPEAVPATAEPSESANAQFPAPPLTRAVCQSPAKS 157


>gnl|CDD|162151 TIGR00996, Mtu_fam_mce, virulence factor Mce family protein.
           Members of this paralogous family are found as six
           tandem homologous proteins in the same orientation per
           cassette, in four separate cassettes in Mycobacterium
           tuberculosis. The six members of each cassette represent
           six subfamilies. One subfamily includes the protein mce
           (mycobacterial cell entry), a virulence protein required
           for invasion of non-phagocytic cells.
          Length = 291

 Score = 25.3 bits (56), Expect = 3.9
 Identities = 21/81 (25%), Positives = 31/81 (38%), Gaps = 15/81 (18%)

Query: 6   IKKILKNGSGAT---AIEYGLLASLVSVAIISAVSTLGDRMKGVYQTISTELDKGDVPPT 62
           +  I   G+GA    +++ G+     + A I + + LG R          EL     PP 
Sbjct: 61  VTAISLPGNGARVTFSLDRGVTIPANATAAIRSTTLLGSR--------YVEL----TPPK 108

Query: 63  KPGSVPMQPESSNPSTRLQPP 83
            PG  P+ P    P  R   P
Sbjct: 109 GPGGPPLPPGGVIPLARTSVP 129


>gnl|CDD|165506 PHA03247, PHA03247, large tegument protein UL36; Provisional.
          Length = 3151

 Score = 25.3 bits (55), Expect = 3.9
 Identities = 11/53 (20%), Positives = 16/53 (30%)

Query: 64  PGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQSPAKNKKSYVKP 116
           P SVP    +  P++   PPA P            +P   + P          
Sbjct: 412 PASVPTPAPTPVPASAPPPPATPLPSAEPGSDDGPAPPPERQPPAPATEPAPD 464



 Score = 24.1 bits (52), Expect = 7.9
 Identities = 8/36 (22%), Positives = 12/36 (33%)

Query: 55   DKGDVPPTKPGSVPMQPESSNPSTRLQPPAKPTSIP 90
            D  D P          P +++P+  L PP       
Sbjct: 2803 DPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTA 2838


>gnl|CDD|151262 pfam10812, DUF2561, Protein of unknown function (DUF2561).  This
           family of proteins with unknown function appears to be
           restricted to Mycobacterium spp.
          Length = 207

 Score = 25.2 bits (55), Expect = 3.9
 Identities = 14/80 (17%), Positives = 25/80 (31%), Gaps = 9/80 (11%)

Query: 28  VSVAIISAVSTLGDRMKGVYQTISTELDKGDVPPTKPGSVPMQPESSNPSTRLQPPAKPT 87
           VS  +I+    L  R + +           D PP +   +  +P     +       +  
Sbjct: 72  VSALVIAGAVPLLLRARRMAD---------DEPPPRSQGLRRRPGQPVRAGYAAARTEKE 122

Query: 88  SIPVKTKSSKKSPKRIQSPA 107
           S+P     S+       S A
Sbjct: 123 SVPATHAPSRTDAGEWSSAA 142


>gnl|CDD|183479 PRK12373, PRK12373, NADH dehydrogenase subunit E; Provisional.
          Length = 400

 Score = 24.8 bits (54), Expect = 5.2
 Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 63  KPGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQ-SPAKNKKSYVKP 116
            P   P Q +++         A+P S   +T ++ K+P     + AKN K+    
Sbjct: 228 VPLLAPWQGDAAPVPP--SEAARPKSADAETNAALKTPATAPKAAAKNAKAPEAQ 280


>gnl|CDD|184793 PRK14696, tynA, tyramine oxidase; Provisional.
          Length = 721

 Score = 24.8 bits (54), Expect = 5.2
 Identities = 8/23 (34%), Positives = 10/23 (43%)

Query: 67  VPMQPESSNPSTRLQPPAKPTSI 89
           VPM     +   R+ P  KP  I
Sbjct: 280 VPMTARPYDGRDRVAPAVKPLQI 302


>gnl|CDD|185300 PRK15402, PRK15402, multidrug efflux system translocase MdfA;
           Provisional.
          Length = 406

 Score = 24.9 bits (55), Expect = 5.3
 Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%)

Query: 9   ILKNGSGATAIEYGLLASLVSVAIISAVSTLG---DRMKGVYQTI 50
           IL +G   ++ EYGLL   V  A+I+   TL     R   +   I
Sbjct: 241 ILISGEQLSSYEYGLLQVPVFGALIAGNLTLARLTSRRP-LRSLI 284


>gnl|CDD|185628 PTZ00449, PTZ00449, 104 kDa microneme/rhoptry antigen; Provisional.
          Length = 943

 Score = 24.7 bits (53), Expect = 6.3
 Identities = 20/64 (31%), Positives = 26/64 (40%), Gaps = 6/64 (9%)

Query: 61  PTKPGSVPMQPESSNPSTRLQPPAKPTS--IPVKTKSSK--KSPKRIQSPAKNKKSYVKP 116
           P  P   P  PE      R +   +PT    P   +     KSPKR +SP K+ K    P
Sbjct: 582 PKDPKH-PKDPEEPKKPKRPRSAQRPTRPKSPKLPELLDIPKSPKRPESP-KSPKRPPPP 639

Query: 117 NKSS 120
            + S
Sbjct: 640 QRPS 643


>gnl|CDD|168338 PRK05996, motB, flagellar motor protein MotB; Validated.
          Length = 423

 Score = 24.7 bits (54), Expect = 7.0
 Identities = 10/30 (33%), Positives = 14/30 (46%)

Query: 90  PVKTKSSKKSPKRIQSPAKNKKSYVKPNKS 119
           P+K    K S K ++ P    +   KP KS
Sbjct: 70  PIKLTDRKPSEKGLKDPVDGAEGEQKPGKS 99


>gnl|CDD|129053 smart00817, Amelin, Ameloblastin precursor (Amelin).  This family
           consists of several mammalian Ameloblastin precursor
           (Amelin) proteins. Matrix proteins of tooth enamel
           consist mainly of amelogenin but also of non-amelogenin
           proteins, which, although their volumetric percentage is
           low, have an important role in enamel mineralisation.
           One of the non-amelogenin proteins is ameloblastin, also
           known as amelin and sheathlin. Ameloblastin (AMBN) is
           one of the enamel sheath proteins which is though to
           have a role in determining the prismatic structure of
           growing enamel crystals.
          Length = 411

 Score = 24.5 bits (53), Expect = 7.3
 Identities = 11/28 (39%), Positives = 13/28 (46%)

Query: 60  PPTKPGSVPMQPESSNPSTRLQPPAKPT 87
           PP  P    +QP+       LQP A PT
Sbjct: 97  PPPLPSQPSLQPQQPGLKPFLQPTALPT 124


>gnl|CDD|149670 pfam08688, ASD1, Apx/Shroom domain ASD1.  This region is found in
           the actin binding protein Shroom which mediates apical
           contriction in epithelial cells and is required for
           neural tube closure. ASD1 has been implicated directly
           in F-actin binding.
          Length = 181

 Score = 24.5 bits (53), Expect = 7.6
 Identities = 13/55 (23%), Positives = 23/55 (41%)

Query: 64  PGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQSPAKNKKSYVKPNK 118
             S P +P  +          KP+    K + S+   ++  +  + KKSY +P K
Sbjct: 90  LSSAPSEPAHTPRFNSEGLAKKPSVTVAKPQVSRIGGRKRFTAEQKKKSYSEPEK 144


>gnl|CDD|162214 TIGR01129, secD, protein-export membrane protein SecD.  SecD from
           Mycobacterium tuberculosis has a long Pro-rich insert.
          Length = 397

 Score = 24.6 bits (54), Expect = 7.6
 Identities = 11/37 (29%), Positives = 20/37 (54%)

Query: 15  GATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTIS 51
           GA +IE G+ A L+ + ++     L  R+ G+   I+
Sbjct: 243 GADSIEAGIKAGLIGLVLVLVFMILYYRLFGLIAAIA 279


>gnl|CDD|179871 PRK04663, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 438

 Score = 24.4 bits (53), Expect = 7.8
 Identities = 7/23 (30%), Positives = 13/23 (56%)

Query: 37  STLGDRMKGVYQTISTELDKGDV 59
           +   D M+   ++IS +L  GD+
Sbjct: 385 ARRFDTMEDAIESISPQLKSGDM 407


>gnl|CDD|184914 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
           Provisional.
          Length = 585

 Score = 24.0 bits (52), Expect = 9.2
 Identities = 10/60 (16%), Positives = 15/60 (25%)

Query: 60  PPTKPGSVPMQPESSNPSTRLQPPAKPTSIPVKTKSSKKSPKRIQSPAKNKKSYVKPNKS 119
                       E++ P      P  P        + K +   I    K K +   P K 
Sbjct: 393 AAANIPPKEPVRETATPPPVPPRPVAPPVPHTPESAPKLTRAAIPVDEKPKYTPPAPPKE 452


  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
   0.305    0.123    0.329 

Gapped
Lambda     K      H
   0.267   0.0448    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,769,654
Number of extensions: 93213
Number of successful extensions: 245
Number of sequences better than 10.0: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 77
Length of query: 120
Length of database: 5,994,473
Length adjustment: 81
Effective length of query: 39
Effective length of database: 4,244,225
Effective search space: 165524775
Effective search space used: 165524775
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 51 (24.1 bits)