RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781031|ref|YP_003065444.1| exsB protein [Candidatus
Liberibacter asiaticus str. psy62]
         (240 letters)



>3bl5_A Queuosine biosynthesis protein QUEC; PREQ1 biosynthesis, RNA
           modification, tRNA, hydrolase; 2.95A {Bacillus subtilis}
          Length = 219

 Score =  207 bits (527), Expect = 2e-54
 Identities = 98/226 (43%), Positives = 150/226 (66%), Gaps = 22/226 (9%)

Query: 11  ALLLFSGGQDSSTCLSWALDRFDRVETLSFDYGQRNKVELECRLCVRKKIVELMPKWKDS 70
           A+++FSGGQDS+TCL WAL  F+ VET++F Y QR+  E+E    + +K           
Sbjct: 6   AIVVFSGGQDSTTCLLWALKEFEEVETVTFHYNQRHSQEVEVAKSIAEK----------- 54

Query: 71  LG-EDHILPLAILGDISHSSLTK-NVAMKIQDNNLPNTFVPGRNIIFLVFAATLAYRLGI 128
           LG ++H+L +++L  ++ ++LT+ ++ ++++D  LP+TFVPGRN++FL FA+ LAY++G 
Sbjct: 55  LGVKNHLLDMSLLNQLAPNALTRNDIEIEVKDGELPSTFVPGRNLVFLSFASILAYQIGA 114

Query: 129 TNIVIGVCETDYSGYPDCRHDTIRAIETAINLGMESHVTVHTPLMWLKKYETWKLAQDIG 188
            +I+ GVCETD+SGYPDCR + +++    +NL ME    +HTPLMWL K ETWKLA ++G
Sbjct: 115 RHIITGVCETDFSGYPDCRDEFVKSCNVTVNLAMEKPFVIHTPLMWLNKAETWKLADELG 174

Query: 189 GQDLVNLILEESHTCYLGKRDKRYEWGYGCNSCPACYLRQKGWMEF 234
               ++ +   + TCY G          GC  CPAC+LR KG+ E+
Sbjct: 175 ---ALDFVKNNTLTCYNG------IIADGCGECPACHLRSKGYEEY 211


>2pg3_A Queuosine biosynthesis protein QUEC; YP_049261.1, hypothetical
           protein, structural genomics; 2.40A {Pectobacterium
           atrosepticum SCRI1043} SCOP: c.26.2.1
          Length = 232

 Score =  150 bits (378), Expect = 3e-37
 Identities = 86/227 (37%), Positives = 124/227 (54%), Gaps = 14/227 (6%)

Query: 11  ALLLFSGGQDSSTCLSWALDRFDRVETLSFDYGQRNKVELECRLCVRKKIVELMPKWKDS 70
           A+++FSGGQDS+TCL  AL  +D V  ++FDYGQR++ E+E    + +K+     K    
Sbjct: 5   AVVVFSGGQDSTTCLIQALQDYDDVHCITFDYGQRHRAEIEVAQELSQKLGAAAHKVL-- 62

Query: 71  LGEDHILPLAILGDISHSSLTKNVAMKIQDNNLPNTFVPGRNIIFLVFAATLAYRLGITN 130
              D  L   +                     +PNTFVPGRNI+FL  A+  AY++G   
Sbjct: 63  ---DVGLLNELATSSLTRDSIPVPDYDANAQGIPNTFVPGRNILFLTLASIYAYQVGAEA 119

Query: 131 IVIGVCETDYSGYPDCRHDTIRAIETAINLGMESHVTVHTPLMWLKKYETWKLAQDIGGQ 190
           ++ GVCETD+SGYPDCR + ++A+  AI LG+   +   TPLMWL K ETW LA      
Sbjct: 120 VITGVCETDFSGYPDCRDEFVKALNQAIVLGIARDIRFETPLMWLNKAETWALADYYQQ- 178

Query: 191 DLVNLILEESHTCYLGKRDKRYEWGYGCNSCPACYLRQKGWMEFKEK 237
             ++ +   + TCY G +      G GC  C AC+LR  G  ++++ 
Sbjct: 179 --LDTVRYHTLTCYNGIK------GDGCGQCAACHLRANGLAQYQKD 217


>2c5s_A THII, probable thiamine biosynthesis protein THII; RNA-binding
           protein, RNA binding protein, tRNA modification,
           4-thiouridine synthase; HET: AMP; 2.5A {Bacillus
           anthracis} SCOP: c.26.2.6 d.308.1.1
          Length = 413

 Score = 52.0 bits (124), Expect = 1e-07
 Identities = 30/198 (15%), Positives = 58/198 (29%), Gaps = 25/198 (12%)

Query: 11  ALLLFSGGQDSSTCLSWALDRFDRVETLSFDYGQRNKVELECRLCVRKKIVELMPKWKDS 70
            ++L SGG DS       + R   VE + F                 ++  + +      
Sbjct: 190 VMVLLSGGIDSPVAAYLTMKRGVSVEAVHFHSPP----------FTSERAKQKVIDLAQE 239

Query: 71  LGEDHILPLAILGDISHSSLTKNVAMKIQDNNLPNTFVPGRNIIFLVFAATLAYRLGITN 130
           L +           +     T+      ++     +    R ++       +A       
Sbjct: 240 LTKYCKRV-----TLHLVPFTEVQKTINKEIPSSYSMTVMRRMMM-RITERIAEERNALA 293

Query: 131 IVIGVCETDYSGYPDCRHDTIRAIETAINLGMESHVTVHTPLMWLKKYETWKLAQDIGGQ 190
           I  G              D++  I    N  +        PL+ + K E  K+A++IG  
Sbjct: 294 ITTGESLGQ---VASQTLDSMHTINEVTNYPV------IRPLITMDKLEIIKIAEEIGTY 344

Query: 191 DLVNLILEESHTCYLGKR 208
           D+     E+  T +    
Sbjct: 345 DISIRPYEDCCTVFTPAS 362


>3k32_A Uncharacterized protein MJ0690; predicted subunit of tRNA
           methyltransferase, methanocaldococcus jannaschii DSM ,
           PSI- 2; 2.50A {Methanocaldococcus jannaschii}
          Length = 203

 Score = 48.5 bits (115), Expect = 1e-06
 Identities = 26/177 (14%), Positives = 47/177 (26%), Gaps = 32/177 (18%)

Query: 12  LLLFSGGQDSSTCLSWALDRFDRVETLSFDYGQRNKVELECRLCVRKKIVELMPKWKDSL 71
            +LFSGG+DSS               ++ ++G     +L                     
Sbjct: 10  HVLFSGGKDSSLSAVILKKLGYNPHLITINFGVIPSYKLAEETAKILGF----------- 58

Query: 72  GEDHILPLAILGDISHSSLTKNVAMKIQDNNLPNTFVPGRNIIFLVFAATLAYRLGITNI 131
            +  ++       +    + K   M I+         PG  I ++            + +
Sbjct: 59  -KHKVI------TLDRKIVEKAADMIIEHKY------PGPAIQYVHKTVLEILADEYSIL 105

Query: 132 VIGVCETDYSGYPDCRHDTIRAIETAINLGMESHVTVHTPLMWLKKYETWKLAQDIG 188
             G    D                   +L M  ++   TPLM         LA +  
Sbjct: 106 ADGTRRDDRVPKLSYSEIQ--------SLEMRKNIQYITPLMGFGYKTLRHLASEFF 154


>1k92_A Argininosuccinate synthase, argininosuccinate; N-type ATP
          pyrophosphatase, ligase; 1.60A {Escherichia coli} SCOP:
          c.26.2.1 d.210.1.1 PDB: 1k97_A* 1kp2_A* 1kp3_A*
          Length = 455

 Score = 36.0 bits (83), Expect = 0.008
 Identities = 10/39 (25%), Positives = 19/39 (48%)

Query: 13 LLFSGGQDSSTCLSWALDRFDRVETLSFDYGQRNKVELE 51
          + FSGG D+S  L W   +       + + GQ ++ + +
Sbjct: 15 IAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDYD 53


>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 = 31.5 bits (71), Expect = 0.16
 Identities = 41/224 (18%), Positives = 63/224 (28%), Gaps = 107/224 (47%)

Query: 8   APSALLLFSGGQDS--------STCLSWA-LDRFDRVET----------------LSFDY 42
            PS L      +DS        S  LS + L + ++V+                 +S   
Sbjct: 320 PPSIL------EDSLENNEGVPSPMLSISNLTQ-EQVQDYVNKTNSHLPAGKQVEISLVN 372

Query: 43  GQRNKV------ELECRLCVR-KKIVELMPKWKDSLGED--HI-------------LPLA 80
           G +N V       L   L +  +K        K   G D   I             LP  
Sbjct: 373 GAKNLVVSGPPQSL-YGLNLTLRKA-------KAPSGLDQSRIPFSERKLKFSNRFLP-- 422

Query: 81  ILGDIS---HSSLTKNVAMKI-QDNNLPNTFVPGRNIIFLVFAATLAYRLGITNIVIGVC 136
               ++   HS L    +  I +D       +   N+ F   A  +          I V 
Sbjct: 423 ----VASPFHSHLLVPASDLINKD-------LVKNNVSFN--AKDIQ---------IPVY 460

Query: 137 ETDYSGYPDCR-------HDTIRAI-------ETAINLGMESHV 166
           +T + G  D R          +  I       ET       +H+
Sbjct: 461 DT-FDG-SDLRVLSGSISERIVDCIIRLPVKWETTTQFKA-THI 501


>1vl2_A Argininosuccinate synthase; TM1780, structural genomics, JCSG,
          protein structure initiative, PSI, joint center for
          structural genomics; 1.65A {Thermotoga maritima} SCOP:
          c.26.2.1 d.210.1.1
          Length = 421

 Score = 31.1 bits (70), Expect = 0.26
 Identities = 11/37 (29%), Positives = 18/37 (48%)

Query: 13 LLFSGGQDSSTCLSWALDRFDRVETLSFDYGQRNKVE 49
          L +SGG D+S  L W  ++   V     + GQ++   
Sbjct: 19 LAYSGGLDTSVILKWLCEKGFDVIAYVANVGQKDDFV 55


>2ntx_A EMB|CAB41934.1, prone8; dimer, guanine nucleotide exchange
          factor, signaling protein; HET: MSE; 2.20A {Arabidopsis
          thaliana} PDB: 2nty_A* 2wbl_A
          Length = 365

 Score = 30.9 bits (70), Expect = 0.27
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 34 RVETLSFDYGQRNKVELECRLCVRKKIVELMPKW 67
          +++ +  D   R K E++  L V   IVE +P  
Sbjct: 57 KLQPMPQDRQARWKKEIDWLLSVTDHIVEFVPSQ 90


>2dpl_A GMP synthetase, GMP synthase [glutamine-hydrolyzing] subunit B;
           structural genomics, NPPSFA; 1.43A {Pyrococcus
           horikoshii OT3} PDB: 2z0c_A 3a4i_A
          Length = 308

 Score = 30.9 bits (69), Expect = 0.28
 Identities = 31/180 (17%), Positives = 62/180 (34%), Gaps = 25/180 (13%)

Query: 10  SALLLFSGGQDSSTCLSWALDRF-DRVETLSFDYGQRNKVELECRLCVRKKIVELMPKWK 68
            A++  SGG DSST    A     DR+  +  + G   K E E  +   +    +   + 
Sbjct: 22  KAIIALSGGVDSSTAAVLAHKAIGDRLHAVFVNTGFLRKGEPEFVVKTFRDEFGMNLHYV 81

Query: 69  DSLGEDHILPLAILGDISHSSLTKNVAMKIQDNNLPNTFVPGRNIIFLVFAATLAYRLGI 128
           D+          +        +   V +++ +                     +A ++G 
Sbjct: 82  DAQDRFFSALKGVTDPEEKRKIIGRVFIEVFEE--------------------VAKKIGA 121

Query: 129 TNIVIGVCETDYSGYPDCRHDTIRAIETAINLGMESHVTVHTPLMWLKKYETWKLAQDIG 188
             ++ G    D+          I++      L  + ++ +  PL  L K E  +LA+ +G
Sbjct: 122 EYLIQGTIAPDWIES----QGKIKSHHNVGGLPEKLNLKLIEPLRDLYKDEVRELAKFLG 177


>2nz2_A Argininosuccinate synthase; amino-acid biosynthesis, aspartate,
          citrulline, structural genomics, structural genomics
          consortium, SGC, ligase; HET: CIR; 2.40A {Homo sapiens}
          Length = 413

 Score = 29.9 bits (67), Expect = 0.47
 Identities = 12/37 (32%), Positives = 18/37 (48%)

Query: 13 LLFSGGQDSSTCLSWALDRFDRVETLSFDYGQRNKVE 49
          L +SGG D+S  L W  ++   V     + GQ+   E
Sbjct: 10 LAYSGGLDTSCILVWLKEQGYDVIAYLANIGQKEDFE 46


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
          photosynthetic reaction center, peripheral antenna;
          HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 30.0 bits (66), Expect = 0.49
 Identities = 7/22 (31%), Positives = 14/22 (63%), Gaps = 2/22 (9%)

Query: 5  IKKAPSALLLFSGGQDSSTCLS 26
          +KK  ++L L++   DS+  L+
Sbjct: 22 LKKLQASLKLYA--DDSAPALA 41



 Score = 28.4 bits (62), Expect = 1.5
 Identities = 8/18 (44%), Positives = 9/18 (50%), Gaps = 2/18 (11%)

Query: 216 YGCNSCPACYLRQKGWME 233
           Y  +S PA  L  K  ME
Sbjct: 32  YADDSAPA--LAIKATME 47


>1kor_A Argininosuccinate synthetase; ligase, riken structural
          genomics/proteomics initiative, RSGI, structural
          genomics; HET: ANP ARG; 1.95A {Thermus thermophilus}
          SCOP: c.26.2.1 d.210.1.1 PDB: 1j1z_A* 1j21_A* 1kh1_A
          1kh2_A* 1kh3_A* 1j20_A*
          Length = 400

 Score = 29.8 bits (67), Expect = 0.58
 Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 1/38 (2%)

Query: 13 LLFSGGQDSSTCLSWALDRFD-RVETLSFDYGQRNKVE 49
          L +SGG D+S  L W  + +   V   + D GQ  +VE
Sbjct: 5  LAYSGGLDTSIILKWLKETYRAEVIAFTADIGQGEEVE 42


>3fiu_A NH(3)-dependent NAD(+) synthetase; rossman fold, adenine
          nucleotide alpha hydrolase-like, ATP- binding, ligase,
          nucleotide-binding; HET: AMP; 1.85A {Francisella
          tularensis subsp}
          Length = 249

 Score = 29.6 bits (65), Expect = 0.75
 Identities = 10/49 (20%), Positives = 17/49 (34%)

Query: 7  KAPSALLLFSGGQDSSTCLSWALDRFDRVETLSFDYGQRNKVELECRLC 55
           A   ++  SGG DS+   S A+        L          +++  L 
Sbjct: 28 PAEGFVIGLSGGIDSAVAASLAVKTGLPTTALILPSDNNQHQDMQDALE 76


>2r79_A Periplasmic binding protein; heme transport, transport protein;
           HET: HEM; 2.40A {Pseudomonas aeruginosa}
          Length = 283

 Score = 28.8 bits (63), Expect = 1.1
 Identities = 10/75 (13%), Positives = 26/75 (34%), Gaps = 5/75 (6%)

Query: 108 VPGRNIIFLVFAAT-LAYRLGITNIVIGVCETDYSGYPDCRHDTIRAIETAINLGMESHV 166
           +P R  +    + +     LG  + ++GV     S +P      + ++     L  E  +
Sbjct: 1   LPQR-WVSAGGSLSEWVVALGGESKLVGV--DTTSQHPQ-ALKQLPSVGYQRQLAAEGVL 56

Query: 167 TVHTPLMWLKKYETW 181
            +   ++   +    
Sbjct: 57  ALRPDILIGTEEMGP 71


>1jyk_A LICC protein, CTP:phosphocholine cytidylytransferase; 3D structure,
           CTP:phosphocholine cytidylyltransferase; 1.50A
           {Streptococcus pneumoniae} SCOP: c.68.1.13 PDB: 1jyl_A*
          Length = 254

 Score = 27.9 bits (61), Expect = 1.8
 Identities = 11/119 (9%), Positives = 29/119 (24%)

Query: 96  MKIQDNNLPNTFVPGRNIIFLVFAATLAYRLGITNIVIGVCETDYSGYPDCRHDTIRAIE 155
           ++    N P   V       + +        GI +I+I V               +R + 
Sbjct: 39  LRPLTENTPKALVQVNQKPLIEYQIEFLKEKGINDIIIIVGYLKEQFDYLKEKYGVRLVF 98

Query: 156 TAINLGMESHVTVHTPLMWLKKYETWKLAQDIGGQDLVNLILEESHTCYLGKRDKRYEW 214
                   +  +++     L           +      N +   ++     +      +
Sbjct: 99  NDKYADYNNFYSLYLVKEELANSYVIDADNYLFKNMFRNDLTRSTYFSVYREDCTNEWF 157


>3a2k_A TRNA(Ile)-lysidine synthase; ligase, pseudo-knot, ligase/RNA
          complex; 3.65A {Geobacillus kaustophilus}
          Length = 464

 Score = 27.7 bits (60), Expect = 2.5
 Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 9/68 (13%)

Query: 2  NDIIKKAPSALLLFSGGQDSSTCLSWALDRFDR----VETLSFDYGQRNK-----VELEC 52
          + ++ +  + ++  SGG DS   L   L   D     V     D+  R +     +E   
Sbjct: 12 HQLLSEGAAVIVGVSGGPDSLALLHVFLSLRDEWKLQVIAAHVDHMFRGRESEEEMEFVK 71

Query: 53 RLCVRKKI 60
          R CV ++I
Sbjct: 72 RFCVERRI 79


>2gm3_A Unknown protein; AT3G01520, putative ethylene-responsive protein,
           USP domain, nucleotide binding domain, AMP, protein
           structure initiative; HET: MSE AMP; 2.46A {Arabidopsis
           thaliana} SCOP: c.26.2.4
          Length = 175

 Score = 27.2 bits (59), Expect = 3.1
 Identities = 9/46 (19%), Positives = 19/46 (41%)

Query: 129 TNIVIGVCETDYSGYPDCRHDTIRAIETAINLGMESHVTVHTPLMW 174
           T +++ V  +    YP+      RA E  +   + S+ +    L+ 
Sbjct: 6   TKVMVAVNASTIKDYPNPSISCKRAFEWTLEKIVRSNTSDFKILLL 51


>2vld_A NUCS, UPF0286 protein pyrab01260; endonuclease, hydrolase; 2.60A
           {Pyrococcus abyssi}
          Length = 251

 Score = 26.7 bits (59), Expect = 4.3
 Identities = 6/23 (26%), Positives = 9/23 (39%)

Query: 120 ATLAYRLGITNIVIGVCETDYSG 142
             LA + G    +   C+  Y G
Sbjct: 19  LDLAEKHGGVVTIFARCKVHYEG 41


>2phn_A F420-0:gamma-glutamyl ligase; coenzyme F420 biosynthesis, amide
           bond forming enzyme, metal dependent, NEW fold, GDP
           binding MCSG; HET: GDP; 1.35A {Archaeoglobus fulgidus
           dsm 4304} SCOP: d.340.1.1 PDB: 2g9i_A
          Length = 254

 Score = 26.7 bits (59), Expect = 4.6
 Identities = 7/42 (16%), Positives = 13/42 (30%), Gaps = 4/42 (9%)

Query: 121 TLAYRLGITNIVIGVCE----TDYSGYPDCRHDTIRAIETAI 158
              +R G+    IG+       D+ G  D     +      +
Sbjct: 156 GRCFRRGVVGFAIGISGVKAMKDWIGRKDLYGRELEVTVECV 197


>2e18_A NH(3)-dependent NAD(+) synthetase; ligase, structural genomics,
          NPPSFA, national project on protein structural and
          functional analyses; 2.10A {Pyrococcus horikoshii OT3}
          Length = 257

 Score = 26.1 bits (56), Expect = 8.4
 Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 4/71 (5%)

Query: 3  DIIKK--APSALLLFSGGQDSSTCLSWALDRF--DRVETLSFDYGQRNKVELECRLCVRK 58
          + I++      ++  SGG DS+T    A      ++V  L   Y +   VE    +  + 
Sbjct: 15 EFIREKGNNGVVIGISGGVDSATVAYLATKALGKEKVLGLIMPYFENKDVEDAKLVAEKL 74

Query: 59 KIVELMPKWKD 69
           I   +   K 
Sbjct: 75 GIGYKVINIKP 85


>3dpi_A NAD+ synthetase; ssgcid, decode, structural genomics, PSI,
          protein structure initiative; 2.20A {Burkholderia
          pseudomallei 1710B}
          Length = 285

 Score = 26.0 bits (56), Expect = 8.4
 Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 2/44 (4%)

Query: 1  MNDIIKKA--PSALLLFSGGQDSSTCLSWALDRFDRVETLSFDY 42
          + D ++ A   + +L  SGG DSST    A    +R+    +D 
Sbjct: 37 VADYLRTAGLRACVLGISGGIDSSTAGRLAQLAVERLRASGYDA 80


>2gw6_A TRNA-splicing endonuclease subunit SEN15; SEN15_human, tRNA
           endonuclease, structural genomics, PSI, protein
           structure initiative; NMR {Homo sapiens} SCOP: c.52.2.1
          Length = 123

 Score = 26.0 bits (57), Expect = 8.5
 Identities = 9/62 (14%), Positives = 26/62 (41%)

Query: 45  RNKVELECRLCVRKKIVELMPKWKDSLGEDHILPLAILGDISHSSLTKNVAMKIQDNNLP 104
           ++  E+ C      +++ L+    +  G   ++P  I   +SH+ + + +    +    P
Sbjct: 40  KSWHEVNCVGLPELQLICLVGTEIEGEGLQTVVPTPITASLSHNRIREILKASRKLQGDP 99

Query: 105 NT 106
           + 
Sbjct: 100 DL 101


  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
   0.322    0.138    0.438 

Gapped
Lambda     K      H
   0.267   0.0544    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,150,595
Number of extensions: 96386
Number of successful extensions: 286
Number of sequences better than 10.0: 1
Number of HSP's gapped: 281
Number of HSP's successfully gapped: 29
Length of query: 240
Length of database: 5,693,230
Length adjustment: 90
Effective length of query: 150
Effective length of database: 3,511,270
Effective search space: 526690500
Effective search space used: 526690500
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 (21.9 bits)
S2: 55 (25.4 bits)