RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780901|ref|YP_003065314.1| single-stranded-DNA-specific
exonuclease protein [Candidatus Liberibacter asiaticus str. psy62]
         (600 letters)



>d1ir6a_ c.107.1.2 (A:) Exonuclease RecJ {Thermus thermophilus
           [TaxId: 274]}
          Length = 385

 Score =  237 bits (606), Expect = 1e-63
 Identities = 120/410 (29%), Positives = 192/410 (46%), Gaps = 28/410 (6%)

Query: 71  DPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDR 130
             L L    +AA  + +A+   ++I + GDYD DG    A+++R L+    + + +IP R
Sbjct: 3   ALLPLKGLREAAALLEEALRQGKRIRVHGDYDADGLTGTAILVRGLAALGADVHPFIPHR 62

Query: 131 IVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIP 190
           + +GYG     + + + E + L +TVDCG T++  L+     G++VIV DHH       P
Sbjct: 63  LEEGYGVLMERVPEHL-EASDLFLTVDCGITNHAELRELLENGVEVIVTDHHTPGKTPPP 121

Query: 191 AYALVNPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNFDLLSLLDLVALATV 250
              +      D    +     AGV FL+L  ++  L            L   DL A+ T+
Sbjct: 122 GLVVHPALTPDL---KEKPTGAGVAFLLLWALHERLGL-------PPPLEYADLAAVGTI 171

Query: 251 CDVVPLIGLNRAYVVKGLMVARRQGNPGLKALIERVNISSPITAENLGYMIGPSINAGGR 310
            DV PL G NRA V +GL         GL+ L E V  +       + + I P INA  R
Sbjct: 172 ADVAPLWGWNRALVKEGLARIPASSWVGLRLLAEAVGYTGKAV--EVAFRIAPRINAASR 229

Query: 311 IGESNLGSRLLISDDSQELEMLAMKLDVLNQNRRLMESAMLEQAEAKVLTQCDDIQQASV 370
           +GE+    RLL++DD+ E + L  +L  LN  R+ +E AML +             +A  
Sbjct: 230 LGEAEKALRLLLTDDAAEAQALVGELHRLNARRQTLEEAMLRK------LLPQADPEAKA 283

Query: 371 IVVEGDRWHPGIVGLLAARLKEKFGRPSFAISFEEDGKGIGSGRSIEGFDIGKMVSFAVE 430
           IV+     HPG++G++A+R+ E   RP F ++     +G G+ RS+      + +  A  
Sbjct: 284 IVLLDPEGHPGVMGIVASRILEATLRPVFLVA-----QGKGTVRSLAPISAVEALRSA-- 336

Query: 431 EGILVKGGGHAMAAGLTVERVNFGRLCDFFQKFAHNIVPALITTPVFKID 480
           E +L++ GGH  AAG  ++   F       + +A      +    V  +D
Sbjct: 337 EDLLLRYGGHKEAAGFAMDEALFPAFKARVEAYAARFPDPVR--EVALLD 384


>d2fywa1 c.135.1.1 (A:1-265) Hypothetical protein SP1609
           {Streptococcus pneumoniae [TaxId: 1313]}
          Length = 265

 Score = 34.7 bits (79), Expect = 0.021
 Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 4/69 (5%)

Query: 114 RFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQG 173
           R + +   +    I    + G G   S  +  + +GA + IT   G   Y   Q   + G
Sbjct: 162 RMVHYQEDDLQKPISRVAICG-GSGQSFYKDALAKGADVYIT---GDIYYHTAQDMLSDG 217

Query: 174 IDVIVIDHH 182
           +  +   H+
Sbjct: 218 LLALDPGHY 226


>d2gx8a1 c.135.1.1 (A:4-373) Nif3-related protein BC4286 {Bacillus
           cereus [TaxId: 1396]}
          Length = 370

 Score = 34.3 bits (78), Expect = 0.027
 Identities = 10/59 (16%), Positives = 23/59 (38%), Gaps = 6/59 (10%)

Query: 136 GPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYAL 194
           G     + +   +GA + +T   G   Y     A   G++++   H+    E++    +
Sbjct: 288 GDGNKYINQAKFKGADVYVT---GDMYYHVAHDAMMLGLNIVDPGHN---VEKVMKQGV 340


>d1wpna_ c.107.1.1 (A:) Manganese-dependent inorganic
           pyrophosphatase (family II) {Bacillus subtilis [TaxId:
           1423]}
          Length = 187

 Score = 33.2 bits (75), Expect = 0.054
 Identities = 19/112 (16%), Positives = 32/112 (28%), Gaps = 7/112 (6%)

Query: 93  EKIMIFG--DYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGA 150
           EKI+IFG  + D D   S        +    NA      ++           ++      
Sbjct: 1   EKILIFGHQNPDTDTICSAIAYADLKNKLGFNAEPVRLGQVNGETQYALDYFKQESPRLV 60

Query: 151 QLIITVDCGSTSYDA-----LQYATNQGIDVIVIDHHQVKSEEIPAYALVNP 197
           +       G    D            +   + VIDHH++ + E         
Sbjct: 61  ETAANEVNGVILVDHNERQQSIKDIEEVQVLEVIDHHRIANFETAEPLYYRA 112


>d1nmpa_ c.135.1.1 (A:) Hypothetical protein YbgI {Escherichia coli
           [TaxId: 562]}
          Length = 247

 Score = 30.4 bits (68), Expect = 0.47
 Identities = 11/44 (25%), Positives = 15/44 (34%), Gaps = 3/44 (6%)

Query: 139 PSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHH 182
            S ++     G    IT   G  S   +  A  QG+      HH
Sbjct: 176 QSFIDSAARFGVDAFIT---GEVSEQTIHSAREQGLHFYAAGHH 216


>d1woua_ c.47.1.16 (A:) Putative 42-9-9 protein (thioredoxin
           containing protein Txnl5) {Human (Homo sapiens) [TaxId:
           9606]}
          Length = 119

 Score = 28.6 bits (63), Expect = 1.4
 Identities = 12/78 (15%), Positives = 27/78 (34%), Gaps = 6/78 (7%)

Query: 77  DCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFL-SHCSVNANMYI-----PDR 130
           DC +A   + + + +  +  +F    V               +  V A   +     P +
Sbjct: 42  DCVQAEPVVREGLKHISEGCVFIYCQVGEKPYWKDPNNDFRKNLKVTAVPTLLKYGTPQK 101

Query: 131 IVDGYGPNPSLMEKFINE 148
           +V+      +L+E   +E
Sbjct: 102 LVESECLQANLVEMLFSE 119


>d1jeoa_ c.80.1.3 (A:) Probable 3-hexulose-6-phosphate isomerase
           MJ1247 {Archaeon Methanococcus jannaschii [TaxId: 2190]}
          Length = 177

 Score = 28.6 bits (63), Expect = 1.7
 Identities = 21/179 (11%), Positives = 50/179 (27%), Gaps = 15/179 (8%)

Query: 59  DFLNPSIRLLMPDPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRF-LS 117
           D ++ +I +L        +       ++  I  ++KI IFG   V  +  +       L 
Sbjct: 5   DIVSNNILILK-KFYTNDEWKNKLDSLIDRIIKAKKIFIFG---VGRSGYIGRCFAMRLM 60

Query: 118 HCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVI 177
           H    +              +  ++         ++             + A N   ++I
Sbjct: 61  HLGFKSYFVGETTTPSYEKDDLLILISGSGRTESVL----------TVAKKAKNINNNII 110

Query: 178 VIDHHQVKSEEIPAYALVNPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNF 236
            I        E     +    +       G       +  + ++I  I+++ N      
Sbjct: 111 AIVCECGNVVEFADLTIPLEVKKSKYLPMGTTFEETALIFLDLVIAEIMKRLNLDESEI 169


>d1y88a2 c.52.1.30 (A:3-127) Hypothetical protein AF1548, N-terminal
           domain {Archaeoglobus fulgidus [TaxId: 2234]}
          Length = 125

 Score = 28.1 bits (62), Expect = 2.3
 Identities = 13/95 (13%), Positives = 26/95 (27%), Gaps = 5/95 (5%)

Query: 90  YNSEKIMIFGDYDVDGAASVALMM---RFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFI 146
           + ++  +I     V+    V       R++  C  +            Y    +      
Sbjct: 18  FETKTNVIVQGNCVEQEIDVVAERDGERYMIECKFHNIPVYTGLKEAMYTY--ARFLDVE 75

Query: 147 NEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDH 181
             G            S +A +YA   GI +    +
Sbjct: 76  KHGFTQPWIFTNTKFSEEAKKYAGCVGIKLTGWSY 110


>d1x94a_ c.80.1.3 (A:) Phosphoheptose isomerase GmhA1 {Vibrio
           cholerae [TaxId: 666]}
          Length = 191

 Score = 27.5 bits (60), Expect = 2.8
 Identities = 17/141 (12%), Positives = 42/141 (29%), Gaps = 16/141 (11%)

Query: 55  DYAKDFLNPSIRLL---MPDPLILTDCDKAARRIVQAIYNSEKIMIFGD--YDVDGAASV 109
           D  +  L  +  +L   + D   +   + AA+ I  +     K++  G+     D     
Sbjct: 4   DLIRSELTEAADVLQKFLSDDHNIAQIEAAAKLIADSFKQGGKVLSCGNGGSHCDAMHFA 63

Query: 110 A--------LMMRFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQLIITVDCGST 161
                        +      + +         GY    S   + +     ++  +     
Sbjct: 64  EELTGRYRENRPGYPGIAISDPSHLSCVSNDFGYDYVFSRYVEAVGAKGDVLFGLSTSGN 123

Query: 162 SYDA---LQYATNQGIDVIVI 179
           S +    ++ A  +G+  I +
Sbjct: 124 SGNILKAIEAAKAKGMKTIAL 144


>d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment
           (residues 410-1202) {Baker's yeast (Saccharomyces
           cerevisiae) [TaxId: 4932]}
          Length = 760

 Score = 27.1 bits (59), Expect = 3.8
 Identities = 9/24 (37%), Positives = 13/24 (54%)

Query: 93  EKIMIFGDYDVDGAASVALMMRFL 116
             +MI  D D DG+    L++ FL
Sbjct: 101 GHLMIMTDQDHDGSHIKGLIINFL 124


>d3c96a1 c.3.1.2 (A:4-182,A:294-402) Monooxygenase PhzS {Pseudomonas
           aeruginosa [TaxId: 287]}
          Length = 288

 Score = 27.0 bits (58), Expect = 4.5
 Identities = 15/102 (14%), Positives = 25/102 (24%), Gaps = 11/102 (10%)

Query: 370 VIVVEGDRWHPGIVGLLAARLKEKFGRPSFAI-----SFEEDGKGIG-SGRSIEGFDIGK 423
           +++        GI GL  A    + G     +          G GI     ++E      
Sbjct: 4   ILIAGA-----GIGGLSCALALHQAGIGKVTLLESSSEIRPLGVGINIQPAAVEALAELG 58

Query: 424 MVSFAVEEGILVKGGGHAMAAGLTVERVNFGRLCDFFQKFAH 465
           +        I      +   +G TV     G           
Sbjct: 59  LGPALAATAIPTHELRYIDQSGATVWSEPRGVEAGNAYPQYS 100


>d1x92a_ c.80.1.3 (A:) Phosphoheptose isomerase GmhA1 {Pseudomonas
           aeruginosa [TaxId: 287]}
          Length = 194

 Score = 26.7 bits (58), Expect = 5.4
 Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 3/65 (4%)

Query: 73  LILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDRIV 132
           ++    ++A+  +V A+ N  KI+  G+    G+A  A                    + 
Sbjct: 23  VLPPYIEQASLVMVNALLNEGKILSCGN---GGSAGDAQHFSSELLNRFERERPSLPAVA 79

Query: 133 DGYGP 137
                
Sbjct: 80  LTTDS 84


>d2ftsa2 b.103.1.1 (A:318-498) Gephyrin, domains 3 and 4 {Rat
           (Rattus norvegicus) [TaxId: 10116]}
          Length = 181

 Score = 25.9 bits (56), Expect = 8.5
 Identities = 8/31 (25%), Positives = 15/31 (48%)

Query: 358 VLTQCDDIQQASVIVVEGDRWHPGIVGLLAA 388
           +     DI++   ++ +G    P  +GLLA 
Sbjct: 140 IRPIGHDIKRGECVLAKGTHMGPSEIGLLAT 170


>d1v4sa2 c.55.1.3 (A:219-461) Glucokinase {Human (Homo sapiens)
           [TaxId: 9606]}
          Length = 243

 Score = 26.0 bits (57), Expect = 9.1
 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 2/46 (4%)

Query: 370 VIVVEGD--RWHPGIVGLLAARLKEKFGRPSFAISFEEDGKGIGSG 413
            + V+G   + HP       A ++             E+G G G+ 
Sbjct: 187 TVGVDGSVYKLHPSFKERFHASVRRLTPSCEITFIESEEGSGRGAA 232


  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
   0.322    0.139    0.406 

Gapped
Lambda     K      H
   0.267   0.0597    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,246,568
Number of extensions: 108617
Number of successful extensions: 304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 301
Number of HSP's successfully gapped: 19
Length of query: 600
Length of database: 2,407,596
Length adjustment: 90
Effective length of query: 510
Effective length of database: 1,171,896
Effective search space: 597666960
Effective search space used: 597666960
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: 56 (25.6 bits)