RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4654
         (559 letters)



>d1ltqa1 c.108.1.9 (A:153-301) Polynucleotide kinase, phosphatase
           domain {Bacteriophage T4 [TaxId: 10665]}
          Length = 149

 Score = 52.8 bits (126), Expect = 7e-09
 Identities = 20/137 (14%), Positives = 41/137 (29%), Gaps = 15/137 (10%)

Query: 374 PPRTEVVVFSVDGSFTASVSVTGRDP------KVRAGAVDIVRHWQELGYLIIYITGRPD 427
           P + + V+F VDG+          D        +    V++ + +  +GY I+ ++GR  
Sbjct: 4   PGKPKAVIFDVDGTLAKMNGRGPYDLEKCDTDVINPMVVELSKMYALMGYQIVVVSGRES 63

Query: 428 MQQGRVLSWLSQHNFP--HGLVSFADGLSPGFLGHKAS-------YLKSLIQDHGVVIHA 478
             +     +                        G                I  H  V  A
Sbjct: 64  GTKEDPTKYYRMTRKWVEDIAGVPLVMQCQREQGDTRKDDVVKEEIFWKHIAPHFDVKLA 123

Query: 479 AYGSNKDVSVYTSVGLK 495
                + V ++  +G++
Sbjct: 124 IDDRTQVVEMWRRIGVE 140


>d2obba1 c.108.1.25 (A:1-122) Hypothetical protein BT0820
           {Bacteroides thetaiotaomicron [TaxId: 818]}
          Length = 122

 Score = 37.2 bits (86), Expect = 0.001
 Identities = 10/64 (15%), Positives = 20/64 (31%), Gaps = 2/64 (3%)

Query: 380 VVFSVDGSFTASVSVTGRDPKVRAGAVDIVRHWQELGYLIIYITGRPDMQQGRVLSWLSQ 439
           +    DG  T       R  +    AV+ ++  Q+  + +I  + R        + W   
Sbjct: 3   IAVDFDG--TIVEHRYPRIGEEIPFAVETLKLLQQEKHRLILWSVREGELLDEAIEWCRA 60

Query: 440 HNFP 443
               
Sbjct: 61  RGLE 64


>d2b82a1 c.108.1.12 (A:4-212) Class B acid phosphatase, AphA
           {Escherichia coli [TaxId: 562]}
          Length = 209

 Score = 34.6 bits (79), Expect = 0.017
 Identities = 16/85 (18%), Positives = 30/85 (35%), Gaps = 12/85 (14%)

Query: 403 AGAVDIVRHWQELGYLIIYITGRPDMQQGRVLSWLSQH-NFPHGLVSFADGLSPGFLGHK 461
             A  ++      G  I ++TGR   +   V   L+ + + P      A  ++P      
Sbjct: 89  EVARQLIDMHVRRGDAIFFVTGRSPTKTETVSKTLADNFHIP------ATNMNPVIFAGD 142

Query: 462 ASYLKS---LIQDHGVVIHAAYGSN 483
                +    +QD  + I   YG +
Sbjct: 143 KPGQNTKSQWLQDKNIRIF--YGDS 165


>d1oo2a_ b.3.4.1 (A:) Transthyretin (synonym: prealbumin) {Gilthead
           seabream (Sparus aurata) [TaxId: 8175]}
          Length = 116

 Score = 31.7 bits (72), Expect = 0.071
 Identities = 17/80 (21%), Positives = 30/80 (37%), Gaps = 10/80 (12%)

Query: 311 VDVHLIKEPPSGEWVLMSTEVTDKTGRVSYTLPEDHKLSYGMYPVKMVVRGDH---TSVD 367
           V + + ++   G W  ++T VTD TG +   + E  +   G+Y V+      +       
Sbjct: 20  VALKVSQKTADGGWTQIATGVTDATGEIHNLITEQ-QFPAGVYRVEFDT-KAYWTNQGST 77

Query: 368 FYLAVVPPRTEVVVFSVDGS 387
            +  V       VVF     
Sbjct: 78  PFHEVAE-----VVFDAHPE 92


>d3ceda1 d.58.18.13 (A:247-341) Methionine import ATP-binding
           protein MetN2 {Staphylococcus aureus [TaxId: 1280]}
          Length = 95

 Score = 30.1 bits (68), Expect = 0.17
 Identities = 5/46 (10%), Positives = 17/46 (36%), Gaps = 1/46 (2%)

Query: 396 GRDPKVRAGAVDIVRHWQELGYLIIYITGRPDMQQGRVLSWLSQHN 441
                +    +   ++   +G+L+++I     +  G+    L +  
Sbjct: 42  DIKINILEANIKNTKN-GTVGFLVLHIPYISSVDFGKFEKELIERQ 86


>d1f86a_ b.3.4.1 (A:) Transthyretin (synonym: prealbumin) {Human
           (Homo sapiens) [TaxId: 9606]}
          Length = 115

 Score = 29.0 bits (65), Expect = 0.62
 Identities = 9/43 (20%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 311 VDVHLIKEPPSGEWVLMSTEVTDKTGRVSYTLPEDHKLSYGMY 353
           V VH+ ++     W   ++  T ++G +     E+  +  G+Y
Sbjct: 19  VAVHVFRKAADDTWEPFASGKTSESGELHGLTTEEEFVE-GIY 60


>d1pfva2 c.26.1.1 (A:4-140,A:176-388) Methionyl-tRNA synthetase
           (MetRS) {Escherichia coli [TaxId: 562]}
          Length = 350

 Score = 29.1 bits (64), Expect = 1.6
 Identities = 10/45 (22%), Positives = 12/45 (26%), Gaps = 2/45 (4%)

Query: 209 FPT-NALPHLFHASFWESCDVIAFILRQIGRFDMAPAMGTDDKDL 252
            P  N   HL H       DV     R  G  ++      D    
Sbjct: 10  LPYANGSIHLGHMLEHIQADVWVRYQRMRG-HEVNFICADDAHGT 53



 Score = 26.8 bits (58), Expect = 8.4
 Identities = 14/97 (14%), Positives = 31/97 (31%), Gaps = 13/97 (13%)

Query: 140 FPT-NALPHLFHASFWESCDVIAFILRQVNNLLTY------------FRAREIGKAPRKV 186
            P  N   HL H       DV     R   + + +             +A+++G  P ++
Sbjct: 10  LPYANGSIHLGHMLEHIQADVWVRYQRMRGHEVNFICADDAHGTPIMLKAQQLGITPEQM 69

Query: 187 TQKWWGSKRIDYALYCPEGLANFPTNALPHLFHASFW 223
             +     + D+A +         T++  +   +   
Sbjct: 70  IGEMSQEHQTDFAGFNISYDNYHSTHSEENRQLSELI 106


>d2d5ba2 c.26.1.1 (A:1-348) Methionyl-tRNA synthetase (MetRS)
           {Thermus thermophilus [TaxId: 274]}
          Length = 348

 Score = 27.3 bits (59), Expect = 6.0
 Identities = 14/41 (34%), Positives = 17/41 (41%), Gaps = 1/41 (2%)

Query: 212 NALPHLFHASFWESCDVIAFILRQIGRFDMAPAMGTDDKDL 252
           NA PHL HA      D +A   R  G +      GTD+   
Sbjct: 15  NAEPHLGHAYTTVVADFLARWHRLDG-YRTFFLTGTDEHGE 54


  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
   0.321    0.136    0.419 

Gapped
Lambda     K      H
   0.267   0.0708    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,130,583
Number of extensions: 100763
Number of successful extensions: 240
Number of sequences better than 10.0: 1
Number of HSP's gapped: 238
Number of HSP's successfully gapped: 14
Length of query: 559
Length of database: 2,407,596
Length adjustment: 90
Effective length of query: 469
Effective length of database: 1,171,896
Effective search space: 549619224
Effective search space used: 549619224
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: 55 (25.0 bits)