RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4846
         (279 letters)



>d2vnud4 b.40.4.16 (D:495-910) Exosome complex exonuclease RRP44
           {Saccharomyces cerevisiae [TaxId: 4932]}
          Length = 416

 Score =  108 bits (271), Expect = 7e-28
 Identities = 65/159 (40%), Positives = 80/159 (50%), Gaps = 23/159 (14%)

Query: 4   AMLRRHPVPPPANFEPLLH-AARRQGFELSVGTGKELATSLDAA---------------- 46
           AMLRRH  PP  NFE L      R+   +S+ + K LA SLD                  
Sbjct: 256 AMLRRHAAPPSTNFEILNEMLNTRKNMSISLESSKALADSLDRCVDPEDPYFNTLVRIMS 315

Query: 47  ------AVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYP 100
                 A YF SG     DF HYGLA  IYTHFTSPIRRY D++ HR LA  IG +    
Sbjct: 316 TRCMMAAQYFYSGAYSYPDFRHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPLSL 375

Query: 101 SLLDKKASTALCYNLNYRNRQAQYAGRASVALHTHLFFR 139
           +  DK     +C N+N ++R AQ+AGRAS+  +     R
Sbjct: 376 THRDKNKMDMICRNINRKHRNAQFAGRASIEYYVGQVMR 414


>d2r7da2 b.40.4.16 (A:3-403) Ribonuclease II family protein DR0020
           {Deinococcus radiodurans [TaxId: 1299]}
          Length = 401

 Score = 93.9 bits (232), Expect = 1e-22
 Identities = 24/93 (25%), Positives = 36/93 (38%), Gaps = 4/93 (4%)

Query: 49  YFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKAS 108
             +    Q S   H+G+   +Y   TSP+RRY D++VH+ L A +            K  
Sbjct: 312 TLARTRFQPSPGPHHGMGLDLYAQATSPMRRYLDLVVHQQLRAFLAGRDPL----SSKVM 367

Query: 109 TALCYNLNYRNRQAQYAGRASVALHTHLFFRSR 141
            A            + A R S   HT  F  ++
Sbjct: 368 AAHIAESQMNADATRQAERLSRRHHTLRFIAAQ 400


>d2vnud2 b.40.4.5 (D:911-998) Exosome complex exonuclease RRP44
           {Saccharomyces cerevisiae [TaxId: 4932]}
          Length = 88

 Score = 86.4 bits (214), Expect = 2e-22
 Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 8/86 (9%)

Query: 168 DEDGYVLYVRKNALQILIPKYGLEGTLFLRC-DSPSVSWTYNEKEQSQSC------GSVV 220
            E GYV+ V  N + +L+PK+G+EG + L        S  ++E E   +           
Sbjct: 3   TETGYVIKVFNNGIVVLVPKFGVEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRD 62

Query: 221 FHSFDPVTVQLSLDRS-NVQHEKLVL 245
            + FD V VQ+           K  L
Sbjct: 63  VYVFDKVEVQVRSVMDPITSKRKAEL 88


>d2ix0a4 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Escherichia
           coli [TaxId: 562]}
          Length = 385

 Score = 92.0 bits (227), Expect = 7e-22
 Identities = 26/93 (27%), Positives = 38/93 (40%), Gaps = 6/93 (6%)

Query: 49  YFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKAS 108
           + S   +      H+GL    Y  +TSPIR+Y D+I HRLL A I    T     D+   
Sbjct: 299 FQSFAEISTEPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVI-KGETATRPQDE--- 354

Query: 109 TALCYNLNYRNRQAQYAGRASVALHTHLFFRSR 141
             +   +  R R  + A R         F + +
Sbjct: 355 --ITVQMAERRRLNRMAERDVGDWLYARFLKDK 385


>d1ikop_ b.6.1.5 (P:) Ephrin-b2 ectodomain {Mouse (Mus musculus)
           [TaxId: 10090]}
          Length = 141

 Score = 27.9 bits (62), Expect = 0.91
 Identities = 22/81 (27%), Positives = 29/81 (35%), Gaps = 7/81 (8%)

Query: 140 SRVQDEDGYVLYVRKNA-LQILIPKSRVQDEDG---YVLY-VRKNALQILIPKYGLEGTL 194
           S+     G VLY +    L I+ PK   +       Y +Y V K+       K   E T 
Sbjct: 14  SKFLPGQGLVLYPQIGDKLDIICPKVDSKTVGQYEYYKVYMVDKDQADRCTIK--KENTP 71

Query: 195 FLRCDSPSVSWTYNEKEQSQS 215
            L C  P     +  K Q  S
Sbjct: 72  LLNCARPDQDVKFTIKFQEFS 92


>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo
           sapiens) [TaxId: 9606]}
          Length = 213

 Score = 28.0 bits (61), Expect = 1.0
 Identities = 8/20 (40%), Positives = 13/20 (65%)

Query: 68  PIYTHFTSPIRRYADIIVHR 87
           P +  F  P ++YAD+I+ R
Sbjct: 173 PAFEEFCLPTKKYADVIIPR 192


>d3b55a1 c.150.1.3 (A:40-442) Succinoglycan biosynthesis protein
           BC3120 {Bacillus cereus [TaxId: 1396]}
          Length = 403

 Score = 27.6 bits (61), Expect = 1.8
 Identities = 10/90 (11%), Positives = 23/90 (25%), Gaps = 14/90 (15%)

Query: 1   MDNAMLRRHPVPP--PANFEPLLHAARRQGFELSVGTGKELATSLDAAAVYFSSGMLQQS 58
            D        +    P ++  +    ++  F + +     +  +             Q  
Sbjct: 314 SDGEFGPYGTLKSDDPNSYNYIFGQVKKDQFFIDLRKANGVTKTWLNE---------QHP 364

Query: 59  DFHHYGLATPIYTHF--TSPIRRYADIIVH 86
            F       P        S  + + DI+V 
Sbjct: 365 IFAGITTEGPDIPKTVDISLGKAF-DILVQ 393


>d1sy6a1 b.1.1.4 (A:1-81) CD3 gamma chain ectodomain fragment {Human
           (Homo sapiens) [TaxId: 9606]}
          Length = 81

 Score = 25.6 bits (56), Expect = 2.6
 Identities = 6/28 (21%), Positives = 16/28 (57%)

Query: 182 QILIPKYGLEGTLFLRCDSPSVSWTYNE 209
            + +  Y  +G++ L CD+ + + T+ +
Sbjct: 8   LVKVYDYQEDGSVLLTCDAEAKNITWFK 35


>d1rlma_ c.108.1.10 (A:) Sugar phosphatase SupH (YbiV)
          {Escherichia coli [TaxId: 562]}
          Length = 269

 Score = 26.8 bits (58), Expect = 2.6
 Identities = 7/62 (11%), Positives = 15/62 (24%)

Query: 1  MDNAMLRRHPVPPPANFEPLLHAARRQGFELSVGTGKELATSLDAAAVYFSSGMLQQSDF 60
          MD   L          F       +++G +  V +G +    +               + 
Sbjct: 9  MDGTFLNDAKTYNQPRFMAQYQELKKRGIKFVVASGNQYYQLISFFPELKDEISFVAENG 68

Query: 61 HH 62
            
Sbjct: 69 AL 70


>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli
           [TaxId: 562]}
          Length = 308

 Score = 26.6 bits (58), Expect = 3.4
 Identities = 4/20 (20%), Positives = 7/20 (35%)

Query: 68  PIYTHFTSPIRRYADIIVHR 87
                   P R  A +I+ +
Sbjct: 276 LNLKQNILPTRERASLILTK 295


>d1wira_ g.37.1.5 (A:) Protein arginine N-methyltransferase 3 {Mouse
           (Mus musculus) [TaxId: 10090]}
          Length = 121

 Score = 25.6 bits (56), Expect = 4.4
 Identities = 8/21 (38%), Positives = 10/21 (47%)

Query: 259 SAGEQGEEKMEEGETRSLYCD 279
           S+G  GE       T  L+CD
Sbjct: 2   SSGSSGEPAHGRQHTPCLFCD 22


>d2jnga1 b.34.9.4 (A:5-80) Cullin-7 {Human (Homo sapiens) [TaxId:
           9606]}
          Length = 76

 Score = 24.3 bits (53), Expect = 5.4
 Identities = 11/29 (37%), Positives = 13/29 (44%), Gaps = 4/29 (13%)

Query: 139 RSRVQDEDGYVLYVRKNALQILIPKSRVQ 167
           RS     + Y LYVR      L P  RV+
Sbjct: 1   RSEFASGNTYALYVRDT----LQPGMRVR 25


>d1qwda_ b.60.1.1 (A:) Outer membrane lipoprotein Blc {Escherichia
           coli [TaxId: 562]}
          Length = 167

 Score = 25.1 bits (54), Expect = 7.3
 Identities = 9/28 (32%), Positives = 15/28 (53%)

Query: 5   MLRRHPVPPPANFEPLLHAARRQGFELS 32
           +L R P       + +L  A R+GF++S
Sbjct: 131 ILSRTPTISDEVKQEMLAVATREGFDVS 158


>d2pjua1 c.92.3.1 (A:11-196) Propionate catabolism operon regulatory
           protein PrpR {Escherichia coli [TaxId: 562]}
          Length = 186

 Score = 25.1 bits (55), Expect = 7.9
 Identities = 10/53 (18%), Positives = 18/53 (33%), Gaps = 2/53 (3%)

Query: 3   NAMLRRHPVPPPANFEPLLHAARRQGFELSVGTG--KELATSLDAAAVYFSSG 53
           N  L +       +    ++  +  G E  VG G   +LA       ++  S 
Sbjct: 117 NLRLDQRSYITEEDARGQINELKANGTEAVVGAGLITDLAEEAGMTGIFIYSA 169


  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
   0.320    0.135    0.398 

Gapped
Lambda     K      H
   0.267   0.0568    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,010,925
Number of extensions: 45042
Number of successful extensions: 124
Number of sequences better than 10.0: 1
Number of HSP's gapped: 120
Number of HSP's successfully gapped: 15
Length of query: 279
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 195
Effective length of database: 1,254,276
Effective search space: 244583820
Effective search space used: 244583820
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: 52 (24.2 bits)