RPS-BLAST 2.2.22 [Sep-27-2009]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= gi|254780753|ref|YP_003065166.1| peptide chain release factor 2
[Candidatus Liberibacter asiaticus str. psy62]
         (355 letters)



>d1gqea_ e.38.1.1 (A:) Polypeptide chain release factor 2 (RF2)
           {Escherichia coli [TaxId: 562]}
          Length = 362

 Score =  315 bits (808), Expect = 4e-87
 Identities = 184/349 (52%), Positives = 239/349 (68%), Gaps = 1/349 (0%)

Query: 3   LSRQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEI 62
           L+ + + L G  D+D   +RL  +N + E P +W     A+ L +ER  L+  +  + ++
Sbjct: 11  LTERSDVLRGYLDYDAKKERLEEVNAELEQPDVWNEPERAQALGKERSSLEAVVDTLDQM 70

Query: 63  QDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVH 122
           +  L D   LLELA+E DD     E    L  ++ ++   +F  + SGE DS D YL++ 
Sbjct: 71  KQGLEDVSGLLELAVEADDEETFNEAVAELDALEEKLAQLEFRRMFSGEYDSADCYLDIQ 130

Query: 123 AGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLK 182
           AG+GGTE+QDWA+ML RMY RWAE R FKTE +E  +GE AGIKS T+ I G  AYGWL+
Sbjct: 131 AGSGGTEAQDWASMLERMYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLR 190

Query: 183 GEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQH 242
            E GVHRLVR SP+DS  RRHTSFSS +VYP VDD I+IEI+ +D RID YRASGAGGQH
Sbjct: 191 TETGVHRLVRKSPFDSGGRRHTSFSSAFVYPEVDDDIDIEINPADLRIDVYRASGAGGQH 250

Query: 243 VNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESS 302
           VN T+SAVRITHIPTG+V QCQ +RSQHKNK QA   ++AKLYE+E+QK+       E +
Sbjct: 251 VNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEVEMQKKNAEKQAMEDN 310

Query: 303 KTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATL 351
           K++IGWG QIRSYVL   + +KDLRT +E  +   VLDG LD F++A+L
Sbjct: 311 KSDIGWGSQIRSYVLDDSR-IKDLRTGVETRNTQAVLDGSLDQFIEASL 358


>d2b3tb1 e.38.1.1 (B:7-354) Peptide chain release factor 1, RF1
           {Escherichia coli [TaxId: 562]}
          Length = 344

 Score =  236 bits (603), Expect = 2e-63
 Identities = 113/334 (33%), Positives = 176/334 (52%), Gaps = 3/334 (0%)

Query: 21  QRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEED 80
           +R   +     D     +    + L RE   L +      + Q    D      +  + +
Sbjct: 4   ERHEEVQALLGDAQTIADQERFRALSREYAQLSDVSRCFTDWQQVQEDIETAQMMLDDPE 63

Query: 81  DCSILQETSDNLQRIKLEVEYKQFESLLSGEAD-SNDAYLEVHAGAGGTESQDWANMLLR 139
              + Q+     +    ++E +    LL  + D   +A+LEV AG GG E+  +A  L R
Sbjct: 64  MREMAQDELREAKEKSEQLEQQLQVLLLPKDPDDERNAFLEVRAGTGGDEAALFAGDLFR 123

Query: 140 MYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSN 199
           MY+R+AE R+++ E +   +GE  G K     I G   YG LK E G HR+ R+   +S 
Sbjct: 124 MYSRYAEARRWRVEIMSASEGEHGGYKEIIAKISGDGVYGRLKFESGGHRVQRVPATESQ 183

Query: 200 SRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGV 259
            R HTS  ++ V P + D+   +++ +D RIDT+R+SGAGGQHVNTTDSA+RITH+PTG+
Sbjct: 184 GRIHTSACTVAVMPELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGI 243

Query: 260 VVQCQQERSQHKNKAQAWNMLRAKLYELELQKR-EEIANIGESSKTEIGWGRQIRSYVLQ 318
           VV+CQ ERSQHKNKA+A ++L A+++  E+ KR +  A+   +         + R+Y   
Sbjct: 244 VVECQDERSQHKNKAKALSVLGARIHAAEMAKRQQAEASTRRNLLGSGDRSDRNRTYNF- 302

Query: 319 PYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLA 352
           P   V D R N+      +V++G LD  ++  + 
Sbjct: 303 PQGRVTDHRINLTLYRLDEVMEGKLDMLIEPIIQ 336


>d1rq0a_ e.38.1.1 (A:) Peptide chain release factor 1, RF1
           {Thermotoga maritima [TaxId: 2336]}
          Length = 333

 Score =  209 bits (533), Expect = 3e-55
 Identities = 122/335 (36%), Positives = 184/335 (54%), Gaps = 18/335 (5%)

Query: 21  QRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEED 80
           ++   +      P L     + K    E   ++     I+ I +R+ +    +EL  EE 
Sbjct: 3   EKKKEIEKLLARPDLTPE--QMKNYGMEYAKIEE----IENITNRIKETQEFIELLREEG 56

Query: 81  DCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRM 140
           +     E        +L+  Y++   LLS E  S+ A +E+  G GG E+  +A  L RM
Sbjct: 57  E----NELEIEKYEKELDQLYQELLFLLSPE-ASDKAIVEIRPGTGGEEAALFARDLFRM 111

Query: 141 YTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNS 200
           YTR+AE++ +  E  EIH+ +  GI+     +KG NAYG LK E GVHR+ R+   +S  
Sbjct: 112 YTRYAERKGWNLEVAEIHETDLGGIREVVFFVKGKNAYGILKYESGVHRVQRVPVTESGG 171

Query: 201 RRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVV 260
           R HTS +++       +  +IEI   D +I+T+RASG GGQ+VN T+SAVRITH+PTG+V
Sbjct: 172 RIHTSTATVA-VLPEIEEKDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIV 230

Query: 261 VQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGR---QIRSYVL 317
           V CQ ERSQ++NK  A  +LRA+LY+L+  K ++   I +  K++IG G    +IR+Y  
Sbjct: 231 VSCQNERSQYQNKQTALRILRARLYQLQ--KEQKEREISQKRKSQIGTGERSEKIRTYNF 288

Query: 318 QPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLA 352
            P   V D R N       ++LDGDLD+ +   + 
Sbjct: 289 -PQNRVTDHRINYTSYRLQEILDGDLDEIISKLIE 322


>d1j26a_ d.50.4.1 (A:) Ict1 protein {Mouse (Mus musculus) [TaxId:
           10090]}
          Length = 112

 Score = 81.2 bits (200), Expect = 1e-16
 Identities = 18/99 (18%), Positives = 29/99 (29%), Gaps = 25/99 (25%)

Query: 213 PVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHI----------------- 255
                     I      I   R+SG GGQ+VN  +S   +                    
Sbjct: 7   GEHAKQASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIAL 66

Query: 256 --------PTGVVVQCQQERSQHKNKAQAWNMLRAKLYE 286
                      +V+  +  R Q +N A+    +R  + E
Sbjct: 67  THKNKINKAGELVLTSESSRYQFRNLAECLQKIRDMIAE 105


>d2jdid1 a.69.1.1 (D:358-475) F1 ATP synthase beta subunit, domain 3
           {Rat (Rattus norvegicus) [TaxId: 10116]}
          Length = 118

 Score = 29.3 bits (66), Expect = 0.57
 Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 25/92 (27%)

Query: 289 LQKREEIANI---------GESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSP---- 335
           LQ  + + +I          E  K  +   R+I+ ++ QP+Q+ +    ++ K  P    
Sbjct: 21  LQDYKSLQDIIAILGMDELSEEDKLTVSRARKIQRFLSQPFQVAEVFTGHLGKLVPLKET 80

Query: 336 ----SDVLDGDLDD------FMKATL--AIKK 355
                 +L G+ D       +M   +  A+ K
Sbjct: 81  IKGFQQILAGEYDHLPEQAFYMVGPIEEAVAK 112


>d1fx0b1 a.69.1.1 (B:378-485) F1 ATP synthase beta subunit, domain 3
           {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}
          Length = 108

 Score = 27.7 bits (62), Expect = 1.4
 Identities = 14/74 (18%), Positives = 29/74 (39%), Gaps = 17/74 (22%)

Query: 289 LQKREEIANI---------GESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSP---- 335
           LQ+ +E+ +I          E  +  +   R+I  ++ QP+ + +    +  K       
Sbjct: 18  LQRYKELQDIIAILGLDELSEEDRLTVARARKIERFLSQPFFVAEVFTGSPGKYVGLAET 77

Query: 336 ----SDVLDGDLDD 345
                 +L G+LD 
Sbjct: 78  IRGFQLILSGELDS 91


>d1m1ca_ e.42.1.1 (A:) L-A virus major coat protein {Saccharomyces
           cerevisiae virus L-A [TaxId: 11008]}
          Length = 651

 Score = 26.9 bits (59), Expect = 2.6
 Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 5/52 (9%)

Query: 100 EYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFK 151
            Y  +          +  YL+V      T ++   N +L M ++W  +    
Sbjct: 182 SYPDWAQFSESFPSIDVPYLDVR---PLTVTE--VNFVLMMMSKWHRRTNLA 228


>d1hyha2 d.162.1.1 (A:167-329) L-2-hydroxyisocapronate
           dehydrogenase, L-HICDH {Lactobacillus confusus [TaxId:
           1583]}
          Length = 163

 Score = 26.4 bits (57), Expect = 4.1
 Identities = 6/35 (17%), Positives = 14/35 (40%)

Query: 36  WQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNL 70
                   +   E++ L  +  +I++  D + D L
Sbjct: 129 VLAETTLDLTTDEQEKLLQSRDYIQQRFDEIVDTL 163


>d1y6va1 c.76.1.1 (A:1-449) Alkaline phosphatase {Escherichia coli
           [TaxId: 562]}
          Length = 449

 Score = 25.1 bits (54), Expect = 8.3
 Identities = 6/32 (18%), Positives = 12/32 (37%)

Query: 41  EAKMLMRERQHLDNAISFIKEIQDRLCDNLIL 72
                + E   LD A+    E   +  + L++
Sbjct: 334 NPCGQIGETVDLDEAVQRALEFAKKEGNTLVI 365


>d1tkla_ d.248.1.1 (A:) Coproporphyrinogen III oxidase {Baker's
          yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 325

 Score = 25.1 bits (54), Expect = 8.6
 Identities = 4/29 (13%), Positives = 12/29 (41%), Gaps = 5/29 (17%)

Query: 46 MRERQHLDNAISFIKEIQDRLCDNLILLE 74
          +R++       + I+  Q  +   L  ++
Sbjct: 9  IRQQ-----MEALIRRKQAEITQGLESID 32


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.316    0.132    0.385 

Gapped
Lambda     K      H
   0.267   0.0695    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,301,135
Number of extensions: 58594
Number of successful extensions: 158
Number of sequences better than 10.0: 1
Number of HSP's gapped: 148
Number of HSP's successfully gapped: 13
Length of query: 355
Length of database: 2,407,596
Length adjustment: 86
Effective length of query: 269
Effective length of database: 1,226,816
Effective search space: 330013504
Effective search space used: 330013504
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.3 bits)