RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781212|ref|YP_003065625.1| hypothetical protein
CLIBASIA_05595 [Candidatus Liberibacter asiaticus str. psy62]
         (109 letters)



>gnl|CDD|179291 PRK01390, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 460

 Score = 30.2 bits (69), Expect = 0.11
 Identities = 25/94 (26%), Positives = 34/94 (36%), Gaps = 20/94 (21%)

Query: 22  VDSD---ALARQLEEDERRIRHYKHVYSTPEGRFVLTDLMVEGGLLSSVSNDSAHQLALL 78
           VD     A+A +LE   RR+       S   G+ +   +  +GG L         ++A L
Sbjct: 224 VDDAYCRAIADRLEAAGRRV----VRISA--GKPLADGVYADGGKLVDARGGRQVEIADL 277

Query: 79  EGKRSL-----------AVHIASNCGLSFERIVQ 101
            G  SL           A   A   GLS E I  
Sbjct: 278 RGIPSLPGAHNAQNAAAAYAAARALGLSPEEIAA 311


>gnl|CDD|183914 PRK13243, PRK13243, glyoxylate reductase; Reviewed.
          Length = 333

 Score = 27.5 bits (61), Expect = 0.85
 Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 3/36 (8%)

Query: 1   MVNFRKLADMIKSKVL---SRGYTVDSDALARQLEE 33
           M+N  +L  M  + +L   +RG  VD+ AL + L+E
Sbjct: 221 MINEERLKLMKPTAILVNTARGKVVDTKALVKALKE 256


>gnl|CDD|129467 TIGR00370, TIGR00370, conserved hypothetical protein TIGR00370. 
          Length = 202

 Score = 26.7 bits (59), Expect = 1.2
 Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 2/31 (6%)

Query: 79  EGKRSLAVHIASNCGLSFERIVQMYSDNPRY 109
           E    L   +A    LS E ++ ++S N  Y
Sbjct: 88  EFGPDLEE-VAKINQLSPEEVIDIHS-NGEY 116


>gnl|CDD|183316 PRK11790, PRK11790, D-3-phosphoglycerate dehydrogenase;
           Provisional.
          Length = 409

 Score = 26.7 bits (60), Expect = 1.4
 Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 3/36 (8%)

Query: 1   MVNFRKLADMIKSKVL---SRGYTVDSDALARQLEE 33
           M+   +LA M    +L   SRG  VD DALA  L+ 
Sbjct: 220 MIGAEELALMKPGAILINASRGTVVDIDALADALKS 255


>gnl|CDD|179576 PRK03381, PRK03381, PII uridylyl-transferase; Provisional.
          Length = 774

 Score = 26.5 bits (59), Expect = 1.5
 Identities = 8/22 (36%), Positives = 10/22 (45%)

Query: 23  DSDALARQLEEDERRIRHYKHV 44
           D   LAR L +  R I +   V
Sbjct: 260 DRFDLARALSDAARTISYAVDV 281


>gnl|CDD|162454 TIGR01631, Trypano_RHS, trypanosome RHS (retrotransposon hot spot)
           family.  This model describes full-length and
           part-length members of the RHS (retrotransposon hot
           spot) family in Trypanosoma brucei and Trypanosoma
           cruzi. Members of this family are frequently interrupted
           by non-LTR retrotransposons inserted at exactly the same
           relative position.
          Length = 760

 Score = 25.9 bits (57), Expect = 2.2
 Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 3/38 (7%)

Query: 75  LALLEGKRSLAVHIASNCG---LSFERIVQMYSDNPRY 109
             +LE  R LA      C    L F  +V+  +   RY
Sbjct: 554 SLVLESTRELAAENFERCAVFALLFGNVVRGIARRLRY 591


>gnl|CDD|132300 TIGR03256, met_CoM_red_alp, methyl-coenzyme M reductase, alpha
          subunit.  Members of this protein family are the alpha
          subunit of methyl coenzyme M reductase, also called
          coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). This
          enzyme, with alpha, beta, and gamma subunits, catalyzes
          the last step in methanogenesis. Several methanogens
          have encode two such enzymes, designated I and II; this
          model does not separate the isozymes.
          Length = 548

 Score = 26.0 bits (57), Expect = 2.2
 Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 7/49 (14%)

Query: 34 DERRIRHYKHVYSTPEGRFVL-------TDLMVEGGLLSSVSNDSAHQL 75
          ++R I  Y     TP G+ VL       TD  VEG  L  V+N +  Q+
Sbjct: 47 EKRGIPFYNPDIGTPLGQRVLMPYQVSGTDTFVEGDDLHFVNNAAMQQM 95


>gnl|CDD|183605 PRK12577, PRK12577, succinate dehydrogenase iron-sulfur subunit;
           Provisional.
          Length = 329

 Score = 25.4 bits (56), Expect = 3.0
 Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 10/39 (25%)

Query: 24  SDALARQLEEDERRIRHYKHVYSTPEGRFVLTDLMVEGG 62
            + LAR+  +D R IRH          R VL DL+ EGG
Sbjct: 236 QEILARKDAQDSRAIRH----------RKVLVDLVKEGG 264


>gnl|CDD|179251 PRK01216, PRK01216, DNA polymerase IV; Validated.
          Length = 351

 Score = 25.5 bits (56), Expect = 3.1
 Identities = 10/22 (45%), Positives = 12/22 (54%)

Query: 18  RGYTVDSDALARQLEEDERRIR 39
             Y      L + LEEDER+IR
Sbjct: 309 TAYREAVRLLQKILEEDERKIR 330


>gnl|CDD|184420 PRK13960, PRK13960, phosphoribosylaminoimidazole-succinocarboxamide
           synthase; Provisional.
          Length = 367

 Score = 25.4 bits (56), Expect = 3.2
 Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 1/29 (3%)

Query: 3   NFRKLADM-IKSKVLSRGYTVDSDALARQ 30
           NF    D+ +  K+L  G+ V SDALA+ 
Sbjct: 205 NFSSADDIDLYEKLLKEGFKVISDALAKL 233


>gnl|CDD|148981 pfam07677, A2M_recep, A-macroglobulin receptor.  This family
          includes the receptor domain region of the
          alpha-2-macroglobulin family.
          Length = 90

 Score = 25.6 bits (57), Expect = 3.2
 Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 1/28 (3%)

Query: 14 KVLSRGYTVDSDALARQLEEDERRIRHY 41
          K+LS G+T D + L +     +R I  Y
Sbjct: 9  KLLS-GFTPDKEDLKQLSNGVDRYISRY 35


>gnl|CDD|180113 PRK05479, PRK05479, ketol-acid reductoisomerase; Provisional.
          Length = 330

 Score = 25.4 bits (57), Expect = 3.4
 Identities = 8/17 (47%), Positives = 11/17 (64%), Gaps = 3/17 (17%)

Query: 56  DLMVEGGL---LSSVSN 69
           DL+ EGG+     S+SN
Sbjct: 237 DLIYEGGIANMRYSISN 253


>gnl|CDD|161972 TIGR00638, Mop, molybdenum-pterin binding domain.  This model
          describes a multigene family of molybdenum-pterin
          binding proteins of about 70 amino acids in Clostridium
          pasteurianum, as a tandemly-repeated domain C-terminal
          to an unrelated domain in ModE, a molybdate transport
          gene repressor of E. coli, and in single or tandemly
          paired domains in several related proteins.
          Length = 69

 Score = 25.4 bits (56), Expect = 3.5
 Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 2/42 (4%)

Query: 56 DLMVEGG--LLSSVSNDSAHQLALLEGKRSLAVHIASNCGLS 95
          DL++ GG  L + ++ +S  +L L  GK   AV  A    L+
Sbjct: 26 DLLLGGGTKLTAVITLESVAELGLKPGKEVYAVIKAPWVILA 67


>gnl|CDD|185419 PTZ00056, PTZ00056, glutathione peroxidase; Provisional.
          Length = 199

 Score = 25.2 bits (55), Expect = 3.8
 Identities = 10/38 (26%), Positives = 22/38 (57%), Gaps = 4/38 (10%)

Query: 75  LALLEGKRSLAVHIASNCGLS---FERIVQMYSD-NPR 108
           ++ L+ K  +  + AS CGL+    +++ +++S  NP 
Sbjct: 34  MSSLKNKVLMITNSASKCGLTKKHVDQMNRLHSVFNPL 71


>gnl|CDD|181823 PRK09401, PRK09401, reverse gyrase; Reviewed.
          Length = 1176

 Score = 24.9 bits (55), Expect = 4.3
 Identities = 9/18 (50%), Positives = 13/18 (72%)

Query: 22  VDSDALARQLEEDERRIR 39
           VD + L R+++ED  RIR
Sbjct: 574 VDLEELLREIDEDRERIR 591


>gnl|CDD|180795 PRK07021, fliL, flagellar basal body-associated protein FliL;
           Reviewed.
          Length = 162

 Score = 24.9 bits (55), Expect = 4.3
 Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 2/43 (4%)

Query: 48  PEGRFVLTDLM--VEGGLLSSVSNDSAHQLALLEGKRSLAVHI 88
              R  L D +  V   LL  +S   A +LA  EGK+ LA  I
Sbjct: 92  EATRERLKDYLPEVRSRLLLLLSRKHAAELATEEGKQKLAAEI 134


>gnl|CDD|178536 PLN02950, PLN02950, 4-alpha-glucanotransferase.
          Length = 909

 Score = 25.1 bits (55), Expect = 4.8
 Identities = 11/14 (78%), Positives = 11/14 (78%), Gaps = 1/14 (7%)

Query: 32  EEDE-RRIRHYKHV 44
           EEDE RR R YKHV
Sbjct: 810 EEDEERRERFYKHV 823


>gnl|CDD|181799 PRK09361, radB, DNA repair and recombination protein RadB;
           Provisional.
          Length = 225

 Score = 24.8 bits (55), Expect = 5.1
 Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 13/42 (30%)

Query: 80  GKRSLAVHIASNC-------------GLSFERIVQMYSDNPR 108
           GK ++ + +A                GLS ER  Q+  ++  
Sbjct: 35  GKTNICLQLAVEAAKNGKKVIYIDTEGLSPERFKQIAGEDFE 76


>gnl|CDD|181414 PRK08410, PRK08410, 2-hydroxyacid dehydrogenase; Provisional.
          Length = 311

 Score = 24.9 bits (55), Expect = 5.3
 Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 3/36 (8%)

Query: 1   MVNFRKLADMIKSKVL---SRGYTVDSDALARQLEE 33
           ++ +++L  +    +L    RG  V+   LA+ L+E
Sbjct: 213 LIAYKELKLLKDGAILINVGRGGIVNEKDLAKALDE 248


>gnl|CDD|178021 PLN02399, PLN02399, phospholipid hydroperoxide glutathione
           peroxidase.
          Length = 236

 Score = 24.5 bits (53), Expect = 7.0
 Identities = 10/21 (47%), Positives = 15/21 (71%)

Query: 75  LALLEGKRSLAVHIASNCGLS 95
           L+  +GK  L V++AS CGL+
Sbjct: 94  LSKFKGKVLLIVNVASKCGLT 114


>gnl|CDD|131592 TIGR02540, gpx7, putative glutathione peroxidase Gpx7.  This
          model represents one of several families of known and
          probable glutathione peroxidases. This family is
          restricted to animals and designated GPX7.
          Length = 153

 Score = 24.4 bits (53), Expect = 7.1
 Identities = 9/16 (56%), Positives = 12/16 (75%)

Query: 80 GKRSLAVHIASNCGLS 95
          GK SL V++AS CG +
Sbjct: 22 GKVSLVVNVASECGFT 37


>gnl|CDD|182585 PRK10606, btuE, putative glutathione peroxidase; Provisional.
          Length = 183

 Score = 24.3 bits (53), Expect = 7.2
 Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 5/36 (13%)

Query: 75  LALLEGKRSLAVHIASNCGLS-----FERIVQMYSD 105
           L    G   L V++AS CGL+      E I + ++D
Sbjct: 20  LEKYAGNVLLIVNVASKCGLTPQYEQLENIQKAWAD 55


>gnl|CDD|161956 TIGR00609, recB, exodeoxyribonuclease V, beta subunit.  All
           proteins in this family for which functions are known
           are DNA-DNA helicases that are used as part of an
           exonuclease-helicase complex (made up of RecBCD
           homologs) that function to generate substrates for the
           initiation of recombination and recombinational repair.
           This family is based on the phylogenomic analysis of JA
           Eisen (1999, Ph.D. Thesis, Stanford University).
          Length = 1087

 Score = 23.9 bits (52), Expect = 8.3
 Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 4/67 (5%)

Query: 41  YKHVYSTPEGRFVLTDLMVEGGLLSSVSNDSAHQLALLEGKRSLAVHIASNCGLSFERIV 100
            + + S P G  +LT+L+    LL   ++   ++L+LL   R L   I SN     E I+
Sbjct: 589 GERLLSQPGGERILTNLLHLAELLQEAAHQERNKLSLL---RWLEDQI-SNEEEEEEEII 644

Query: 101 QMYSDNP 107
           ++ SD  
Sbjct: 645 RLESDAE 651


>gnl|CDD|178976 PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis
           protein MobA; Reviewed.
          Length = 193

 Score = 24.0 bits (53), Expect = 8.7
 Identities = 4/16 (25%), Positives = 6/16 (37%)

Query: 25  DALARQLEEDERRIRH 40
             L   L   ER++  
Sbjct: 143 PDLEAYLAAGERKVMA 158


>gnl|CDD|179176 PRK00943, PRK00943, selenophosphate synthetase; Provisional.
          Length = 347

 Score = 24.0 bits (53), Expect = 8.9
 Identities = 9/29 (31%), Positives = 16/29 (55%)

Query: 47  TPEGRFVLTDLMVEGGLLSSVSNDSAHQL 75
             E R +L D    GGLL +V+ ++  ++
Sbjct: 289 PDEQRALLCDPQTSGGLLVAVAPEAEAEV 317


>gnl|CDD|178513 PLN02925, PLN02925, 4-hydroxy-3-methylbut-2-en-1-yl diphosphate
           synthase.
          Length = 733

 Score = 23.9 bits (52), Expect = 8.9
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 81  KRSLAVHIASNCGLSFERIVQMYSDNPR 108
           K   A+ I +N G   +RI+  Y D+PR
Sbjct: 221 KYGRAMRIGTNHGSLSDRIMSYYGDSPR 248


>gnl|CDD|183351 PRK11873, arsM, arsenite S-adenosylmethyltransferase; Reviewed.
          Length = 272

 Score = 23.8 bits (52), Expect = 10.0
 Identities = 9/25 (36%), Positives = 16/25 (64%)

Query: 48  PEGRFVLTDLMVEGGLLSSVSNDSA 72
           P GRF ++D+++ G L   + ND+ 
Sbjct: 175 PGGRFAISDVVLRGELPEEIRNDAE 199


  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
   0.320    0.134    0.372 

Gapped
Lambda     K      H
   0.267   0.0684    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,756,579
Number of extensions: 100537
Number of successful extensions: 312
Number of sequences better than 10.0: 1
Number of HSP's gapped: 312
Number of HSP's successfully gapped: 43
Length of query: 109
Length of database: 5,994,473
Length adjustment: 75
Effective length of query: 34
Effective length of database: 4,373,873
Effective search space: 148711682
Effective search space used: 148711682
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: 50 (23.1 bits)