RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780891|ref|YP_003065304.1| hypothetical protein
CLIBASIA_03940 [Candidatus Liberibacter asiaticus str. psy62]
         (215 letters)



>3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I
           two-component histidine kinase, phosphoprotein; HET:
           ADP; 2.03A {Geobacillus stearothermophilus}
          Length = 244

 Score = 46.0 bits (109), Expect = 6e-06
 Identities = 41/174 (23%), Positives = 70/174 (40%), Gaps = 22/174 (12%)

Query: 12  MDLVALLCSRICHDIISPIGAIHNSLELL-DEVGIEDEVMQLIR-----LSSMSAIIR-- 63
           M+ V  L + I H+I +P+ A    ++L+ ++    D+  Q  R     L    AII   
Sbjct: 11  MEAVTHLAASISHEIRNPLTAARGFIQLIEEQPLAADKRRQYARIAIEELDRAEAIITDY 70

Query: 64  LKFMRLAFGYTGSVDSLIGLGDIEQVIEDF--IAVDKRVQVSWTGEKIDLSRERAKI--- 118
           L F + A      ++  +   +IE+VI+    +A    V +  T     +  ER K    
Sbjct: 71  LTFAKPAPETPEKLNVKL---EIERVIDILRPLANMSCVDIQATLAPFSVIGEREKFRQC 127

Query: 119 LLNLFMVAHASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQ 166
           LLN+   A  ++P GG + + V       +  +   G       L R  E +  
Sbjct: 128 LLNVMKNAIEAMPNGGTLQVYVSIDNGRVLIRIADTGVGMTKEQLERLGEPYFT 181


>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 = 39.4 bits (91), Expect = 7e-04
 Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 154 NGNLARFPEKFTQIVDGNVESTIDSHDIQFYYVILLAHENKIRLL-PEIIDDHN 206
           NGNL   P  +T  VD   +  +D  D++  Y   +   + IRL+ PE+ + +N
Sbjct: 865 NGNLKGRP--YTGWVDSKTKEPVDDKDVKAKYETSILEHSGIRLIEPELFNGYN 916


>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 = 35.3 bits (81), Expect = 0.009
 Identities = 25/149 (16%), Positives = 41/149 (27%), Gaps = 66/149 (44%)

Query: 74  TGSVDSLIGLGDIEQVIEDFIAVDKRVQVSWTGEKIDLSR----ERAKILLNLFMVAHAS 129
           +G   SL GL      +       ++ +   +G  +D SR    ER     N F      
Sbjct: 380 SGPPQSLYGL---NLTL-------RKAKAP-SG--LDQSRIPFSERKLKFSNRF------ 420

Query: 130 LPRGGKVTISV---------------QDSKNENIFSLKINGNLARFPEKFTQIVDGNVES 174
           LP      ++                +D    N+     N    + P          V  
Sbjct: 421 LP------VASPFHSHLLVPASDLINKDLVKNNV---SFNAKDIQIP----------VYD 461

Query: 175 TIDSHDIQFYYVILLAHENKIRLLPEIID 203
           T D  D++              +   I+D
Sbjct: 462 TFDGSDLR---------VLSGSISERIVD 481


>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase,
           phosphoprotein, transferase, two-component regulatory
           system; 3.80A {Thermotoga maritima}
          Length = 349

 Score = 35.0 bits (80), Expect = 0.013
 Identities = 28/169 (16%), Positives = 64/169 (37%), Gaps = 23/169 (13%)

Query: 19  CSRICHDIISPIGAIHNSLELLDEVGIEDEV----MQLIRLSS--MSAIIR--LKFMRLA 70
            +R+ H+I +PI  I   +  + +   + E     + +I      +  I++  L++ +  
Sbjct: 136 TARVAHEIRNPITIIGGFIMRMKKHLDDPETLKKYINIITNELSRLETIVKEILEYSKER 195

Query: 71  FGYTGSVDSLIGLGDIEQVIEDF--IAVDKRVQVSWTGE----KIDLSRER-AKILLNLF 123
                +  +L  L  I +V   F        +   +  +    +++  R R  ++L+NL 
Sbjct: 196 QVLEFTEFNLNEL--IREVYVLFEEKIRKMNIDFCFETDNEDLRVEADRTRIKQVLINLV 253

Query: 124 MVAHASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQ 166
             A  +    GK+ I+ +D   +   S+  +G         +    F  
Sbjct: 254 QNAIEATGENGKIKITSEDMYTKVRVSVWNSGPPIPEELKEKIFSPFFT 302


>3jz3_A Sensor protein QSEC; helix-turn-helix, kinase domain, ATP-binding,
           cell inner MEM cell membrane, kinase, membrane,
           nucleotide-binding; 2.50A {Escherichia coli}
          Length = 222

 Score = 33.9 bits (78), Expect = 0.027
 Identities = 34/174 (19%), Positives = 67/174 (38%), Gaps = 26/174 (14%)

Query: 24  HDIISPIGAIHNSLELLDEVGIEDEVMQ--LIRLSS----MSAIIR--LKFMRLAFGYTG 75
           H++ SP+ A+    E+      + +  +  L++L S     + ++   L   RL      
Sbjct: 11  HELRSPLTALKVQTEVAQLSDDDPQARKKALLQLHSGIDRATRLVDQLLTLSRLDSLDNL 70

Query: 76  SVDSLIGLGD-IEQVIEDF--IAVDKRVQVSWTGEKIDLSRER-----AKILLNLFMVAH 127
              + I L D ++  + D    A   ++ V  T     + R       + ++ NL   A 
Sbjct: 71  QDVAEIPLEDLLQSSVMDIYHTAQQAKIDVRLTLNAHSIKRTGQPLLLSLLVRNLLDNAV 130

Query: 128 ASLPRGGKVTISVQDSKNENIFSLKING------NLARFPEKFTQIVDGNVEST 175
              P+G  V +++    N + F ++ NG       LAR  E+F +        +
Sbjct: 131 RYSPQGSVVDVTL----NADNFIVRDNGPGVTPEALARIGERFYRPPGQTATGS 180


>2vxt_I Interleukin-18; FAB, IL-18, secreted, cytokine, autoimmunity,
           glycoprotein, TH1/TH2 cells, immunoglobulin domain,
           immunoglobulin V region; 1.49A {Homo sapiens} PDB:
           1j0s_A 3f62_B
          Length = 157

 Score = 33.3 bits (76), Expect = 0.041
 Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 12/71 (16%)

Query: 129 SLPRGGKVTISVQDSKNENIFSLKINGNLARFPEKFTQIVDGNVESTIDS--HDIQFYYV 186
           S PRG  VTISV+  K   I +L     +  F E        N    I     DI F+  
Sbjct: 55  SQPRGMAVTISVKAEK---ISTLSAENKIISFKE-------MNPPDNIKDTKSDIIFFQR 104

Query: 187 ILLAHENKIRL 197
            +  H+NK++ 
Sbjct: 105 SVPGHDNKMQF 115


>1gkz_A [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase;
           transferase, mitochondrial protein kinase, potassium;
           HET: ADP; 2.2A {Rattus norvegicus} SCOP: a.29.5.1
           d.122.1.4 PDB: 1gjv_A 1gkx_A*
          Length = 388

 Score = 29.8 bits (66), Expect = 0.44
 Identities = 18/162 (11%), Positives = 45/162 (27%), Gaps = 26/162 (16%)

Query: 20  SRICHDIISPIGAIHNSLELL-DEVGIEDEVMQLIRLSSMSAII-------RLKFMRLAF 71
            ++  D    +  +   L      +  E  V   +  +  S +         L       
Sbjct: 126 RQLLDDHKDVVTLLAEGLRESRKHIEDEKLVRYFLDKTLTSRLGIRMLATHHLALHEDKP 185

Query: 72  GYTGSVDSLIGLGD-IEQVIEDFIAVDKRVQVSWTGEKIDLS---------RERAKILLN 121
            + G + + +     IE+ ++    + +    +    +I+                IL  
Sbjct: 186 DFVGIICTRLSPKKIIEKWVDFARRLCEHKYGNAPRVRINGHVAARFPFIPMPLDYILPE 245

Query: 122 LFMVAHASLPRGG--------KVTISVQDSKNENIFSLKING 155
           L   A  +              V I++ ++  + I  +   G
Sbjct: 246 LLKNAMRATMESHLDTPYNVPDVVITIANNDVDLIIRISDRG 287


>1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase,
           thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP:
           a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2
           PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A*
           1jdb_B* 1kee_A* 1t36_A*
          Length = 1073

 Score = 29.9 bits (67), Expect = 0.46
 Identities = 22/138 (15%), Positives = 53/138 (38%), Gaps = 34/138 (24%)

Query: 42  EVGIEDEVMQLIRLSSMSAIIRLKF------------MRLAFGYTGSVDSLIGLGDIEQV 89
           +  +++  + LI ++  +A                   R+  G +     L   G  ++V
Sbjct: 829 QFAVKNNEVYLIEVNPRAARTVPFVSKATGVPLAKVAARVMAGKS-----LAEQGVTKEV 883

Query: 90  IEDFIAVDKRVQVSW----------------TGEKIDLSRERAKILLNLFMVAHASLPRG 133
           I  + +V K V + +                TGE + + R  A+      + +++++ + 
Sbjct: 884 IPPYYSV-KEVVLPFNKFPGVDPLLGPEMRSTGEVMGVGRTFAEAFAKAQLGSNSTMKKH 942

Query: 134 GKVTISVQDSKNENIFSL 151
           G+  +SV++   E +  L
Sbjct: 943 GRALLSVREGDKERVVDL 960


>3fmw_A Oxygenase; mithramycin, baeyer-villiger, flavin binding protein,
           oxidoreductase; HET: FAD; 2.89A {Streptomyces
           argillaceus}
          Length = 570

 Score = 29.3 bits (64), Expect = 0.68
 Identities = 11/65 (16%), Positives = 24/65 (36%), Gaps = 3/65 (4%)

Query: 34  HNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGL---GDIEQVI 90
             ++E LD  G+ D  ++  +++       +    L FG   +     GL      E ++
Sbjct: 95  IRTVETLDLRGLLDRFLEGTQVAKGLPFAGIFTQGLDFGLVDTRHPYTGLVPQSRTEALL 154

Query: 91  EDFIA 95
            +   
Sbjct: 155 AEHAR 159


>1zvo_C Myeloma immunoglobulin D delta; immunoglobulin fold, antibody,
           immune system; NMR {Homo sapiens}
          Length = 512

 Score = 29.0 bits (64), Expect = 0.87
 Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 2/21 (9%)

Query: 134 GKVTISVQDSKNENIFSLKIN 154
           G+VTISV  S+  N FSL + 
Sbjct: 67  GRVTISVDTSR--NQFSLNLR 85


>2dkh_A 3-hydroxybenzoate hydroxylase; flavoprotein, monooxygenase,
           substrate complex, oxidoreductase; HET: FAD 3HB; 1.80A
           {Comamonas testosteroni} PDB: 2dki_A*
          Length = 639

 Score = 28.9 bits (63), Expect = 0.97
 Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 5/64 (7%)

Query: 30  IGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGLGDIEQV 89
            G    ++E+ +     D +++         I  + F +   G  G +     + D E  
Sbjct: 75  DGIACRTMEMFEAFEFADSILKEA-----CWINDVTFWKPDPGQPGRIARHGRVQDTEDG 129

Query: 90  IEDF 93
           + +F
Sbjct: 130 LSEF 133


>3a0y_A Sensor protein; ATP-LID, kinase, phosphoprotein, transferase,
           two-component regulatory system; 1.57A {Thermotoga
           maritima} PDB: 3a0t_A* 3a0x_A 3a0w_A 3a0z_A
          Length = 152

 Score = 28.4 bits (63), Expect = 1.3
 Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 7/72 (9%)

Query: 86  IEQVIEDF--IAVDKRVQVSWTGE----KIDLSRER-AKILLNLFMVAHASLPRGGKVTI 138
           I +V   F        +   +  +    +++  R R  ++L+NL   A  +    GK+ I
Sbjct: 12  IREVYVLFEEKIRKMNIDFCFETDNEDLRVEADRTRIKQVLINLVQNAIEATGENGKIKI 71

Query: 139 SVQDSKNENIFS 150
           + +D   +   S
Sbjct: 72  TSEDMYTKVRVS 83


>1wth_A Protein GP5, tail-associated lysozyme; triple-stranded beta-helix,
           OB fold, pseudohexamer, T4 tail lysozyme, GP5-GP27;
           2.80A {Enterobacteria phage T4} PDB: 2z6b_A 1k28_A
           1pdl_A
          Length = 584

 Score = 28.2 bits (62), Expect = 1.5
 Identities = 8/53 (15%), Positives = 15/53 (28%), Gaps = 3/53 (5%)

Query: 133 GGKVTISVQDSKNENI---FSLKINGNLARFPEKFTQIVDGNVESTIDSHDIQ 182
            G  T +V  + +  +       + G+        + I  G         DI 
Sbjct: 523 EGNQTNTVNGNLSWKVAGTVDWDVGGDWTEKMASMSSISSGQYTIDGSRIDIG 575


>2fq6_A Cystathionine beta-lyase; protein-inhibitor complex, PLP cofactor
           covalently bound to P3F inhibitor; HET: P3F; 1.78A
           {Escherichia coli} SCOP: c.67.1.3 PDB: 2gqn_A* 1cl1_A*
           1cl2_A*
          Length = 415

 Score = 28.0 bits (61), Expect = 1.9
 Identities = 12/68 (17%), Positives = 20/68 (29%), Gaps = 27/68 (39%)

Query: 26  IISPIGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGLGD 85
           I++       ++    E+        LIRL                         IGL D
Sbjct: 367 ILANQPEHIAAIRPQGEIDFSGT---LIRLH------------------------IGLED 399

Query: 86  IEQVIEDF 93
           ++ +I D 
Sbjct: 400 VDDLIADL 407


>2znx_A SCFV; fluorotryptohpan, 5-fluorotryptophan, 19F, single chain FV,
           allergen, antimicrobial, bacteriolytic enzyme,
           glycosidase, hydrolase; HET: FTR 1PG; 2.30A {Homo
           sapiens} PDB: 2znw_A*
          Length = 242

 Score = 27.8 bits (62), Expect = 2.0
 Identities = 6/21 (28%), Positives = 12/21 (57%), Gaps = 2/21 (9%)

Query: 134 GKVTISVQDSKNENIFSLKIN 154
            +++I+   SK  N + L +N
Sbjct: 187 SRISITRDTSK--NQYYLDLN 205


>3b7s_A Leukotriene A-4 hydrolase; transition state, analogue peptide,
           hydrolysis, alternative splicing, cytoplasm, hydrolase,
           leukotriene biosynthesis, metal-binding; 1.47A {Homo
           sapiens} SCOP: a.118.1.7 b.98.1.1 d.92.1.13 PDB: 3b7t_A
           3b7r_L* 2r59_A* 3b7u_X* 3fun_A* 1hs6_A* 3fts_A* 3ftu_A*
           2vj8_A* 3ftw_A* 3ftx_A* 3fty_A* 3fu0_A* 3fu3_A* 3fu5_A*
           3fu6_A* 3fud_A* 3fue_A* 3fuf_A* 3fuh_A* ...
          Length = 616

 Score = 27.2 bits (59), Expect = 2.7
 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 11/49 (22%)

Query: 134 GKVTISVQ-----------DSKNENIFSLKINGNLARFPEKFTQIVDGN 171
           G   ++VQ           D+K+  I  + ING   ++     Q   G+
Sbjct: 42  GTAALTVQSQEDNLRSLVLDTKDLTIEKVVINGQEVKYALGERQSYKGS 90


>1x9q_A SCFV, 4M5.3 anti-fluorescein single chain antibody fragment; VERY
           high affinity, antibody binding, electrostatics,
           directed evolution; HET: FLU; 1.50A {Homo sapiens}
          Length = 268

 Score = 26.7 bits (59), Expect = 3.5
 Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 2/21 (9%)

Query: 134 GKVTISVQDSKNENIFSLKIN 154
           G+ TIS  DSK  +   L++N
Sbjct: 219 GRFTISRDDSK--SSVYLQMN 237


>3hwc_A Chlorophenol-4-monooxygenase component 2; beta barrel, helix
           bundle, oxidoreductase; 2.50A {Burkholderia cepacia}
          Length = 515

 Score = 26.1 bits (57), Expect = 6.2
 Identities = 6/58 (10%), Positives = 16/58 (27%)

Query: 19  CSRICHDIISPIGAIHNSLELLDEVGIEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGS 76
                 D+      +  S    D+       ++L      +   R++  R+      +
Sbjct: 376 VMYELLDLAGRSSLMIPSEGQWDDSQSGQWFVKLNNGPKGNPRERVQIGRVIRDLYLT 433


>2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl
           MAD, two-component systems, transferase; HET: ADP; 1.9A
           {Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB:
           3dge_A*
          Length = 258

 Score = 26.0 bits (57), Expect = 6.6
 Identities = 32/177 (18%), Positives = 61/177 (34%), Gaps = 30/177 (16%)

Query: 20  SRICHDIISPIGAIHNSLELLDEVGIED------EVMQLIRLSS--MSAIIR--LKFMRL 69
           + I H++ +P+ AI    E +     E       E +++I   S  +  ++   L F RL
Sbjct: 25  ANISHELRTPLTAIKAYAETIYNSLGELDLSTLKEFLEVIIDQSNHLENLLNELLDFSRL 84

Query: 70  AFGYTGSVDSLIGLGD-IEQVIEDFIAVDKRVQVSWTGE---------KIDLSRERAKIL 119
                      + L D +E  +           V+   E          ID +R R ++L
Sbjct: 85  ERKSLQINREKVDLCDLVESAVNAIKEFASSHNVNVLFESNVPCPVEAYIDPTRIR-QVL 143

Query: 120 LNLFMVAHASLPRGGKV---TISVQDSKNENIFSLKING------NLARFPEKFTQI 167
           LNL         +        + + +     +  ++ NG         R  E+F ++
Sbjct: 144 LNLLNNGVKYSKKDAPDKYVKVILDEKDGGVLIIVEDNGIGIPDHAKDRIFEQFYRV 200


>2k9g_A SH3 domain-containing kinase-binding protein 1; CIN85, adaptor
           protein, downregulation, CBL, alternative splicing,
           apoptosis, cell junction; NMR {Homo sapiens}
          Length = 73

 Score = 26.0 bits (57), Expect = 6.7
 Identities = 10/45 (22%), Positives = 23/45 (51%)

Query: 129 SLPRGGKVTISVQDSKNENIFSLKINGNLARFPEKFTQIVDGNVE 173
           ++  G  VT+  +D  +   +  ++NG    FP+ F +++  + E
Sbjct: 27  TIKEGDIVTLINKDCIDVGWWEGELNGRRGVFPDNFVKLLPPDFE 71


>3i4u_A ATP-dependent RNA helicase DHX8; splicing, ATP-binding,
          hydrolase, mRNA processing, splicing,
          nucleotide-binding, nucleus, phosphoprotein, SPLI;
          2.10A {Homo sapiens}
          Length = 270

 Score = 25.5 bits (55), Expect = 8.8
 Identities = 9/28 (32%), Positives = 15/28 (53%)

Query: 28 SPIGAIHNSLELLDEVGIEDEVMQLIRL 55
          SP+  +  ++E L  +G  D+   L RL
Sbjct: 15 SPMETLITAMEQLYTLGALDDEGLLTRL 42


  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
   0.323    0.140    0.390 

Gapped
Lambda     K      H
   0.267   0.0688    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,814,717
Number of extensions: 83078
Number of successful extensions: 304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 302
Number of HSP's successfully gapped: 26
Length of query: 215
Length of database: 5,693,230
Length adjustment: 88
Effective length of query: 127
Effective length of database: 3,559,758
Effective search space: 452089266
Effective search space used: 452089266
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.0 bits)