RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15832
         (2157 letters)



>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency
            virus type 1, different isolates [TaxId: 11676]}
          Length = 42

 Score = 32.9 bits (75), Expect = 0.018
 Identities = 19/64 (29%), Positives = 25/64 (39%), Gaps = 24/64 (37%)

Query: 1861 VQCYQCAKFGHTSKFCHNPVLCNVCYLPKLDQHTCRAPENVRCVNC-KGDHKPTEQRCPE 1919
            V+C+ C K GHT++                    CRAP    C  C K  H+   + C E
Sbjct: 2    VKCFNCGKEGHTAR-------------------NCRAPRKKGCWKCGKEGHQ--MKDCTE 40

Query: 1920 MSRQ 1923
              RQ
Sbjct: 41   --RQ 42


>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus
            type 2 [TaxId: 11709]}
          Length = 29

 Score = 32.1 bits (73), Expect = 0.031
 Identities = 8/22 (36%), Positives = 16/22 (72%)

Query: 1858 QRVVQCYQCAKFGHTSKFCHNP 1879
            ++V++C+ C K GH+++ C  P
Sbjct: 4    RKVIRCWNCGKEGHSARQCRAP 25


>d2vglb_ a.118.1.10 (B:) Adaptin beta subunit N-terminal fragment
            {Human (Homo sapiens) [TaxId: 9606]}
          Length = 579

 Score = 35.1 bits (80), Expect = 0.10
 Identities = 24/149 (16%), Positives = 50/149 (33%), Gaps = 16/149 (10%)

Query: 1103 IQRSIEHLQSEMSKPDVTPTNQIKTK----------TVTKKLNLLYYAMQPNDKNVFDRK 1152
            I + +  L+   ++ DV    +              +  + ++ L   +Q     V    
Sbjct: 348  IAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEA 407

Query: 1153 IKAFVKELEDYPLDTLSKRIIALYDNKQLVDNPKAVTNIQTKVFCLIIQLNTTRPEFLPT 1212
            I         YP +     I  L +N   +D P A   +       I+     R +    
Sbjct: 408  IVVIRDIFRKYP-NKYESIIATLCENLDSLDEPDARAAM-----IWIVGEYAERIDNADE 461

Query: 1213 FMKTLHETLVLHSETTLLSILYALTQLYV 1241
             +++  E     S    L++L A+ +L++
Sbjct: 462  LLESFLEGFHDESTQVQLTLLTAIVKLFL 490


>d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces
           cerevisiae) [TaxId: 4932]}
          Length = 1449

 Score = 29.8 bits (66), Expect = 4.7
 Identities = 26/167 (15%), Positives = 55/167 (32%), Gaps = 36/167 (21%)

Query: 494 HI--PIPTVHK--IRSNKNILNT---KNEKVLANKKDTVPEDVSTNENGQNILNHTVNKA 546
           HI    P  H   I   K +         K+L ++ + +       ++ +          
Sbjct: 82  HIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNELMRQALAIKDSKKRFAAIWTLC 141

Query: 547 STKNTILPIVKTDNLMQQNRIIQSYNCN----------LNLV-------KPATVQKPPHT 589
            TK      V +++     +++    C           L LV             +P   
Sbjct: 142 KTKMVCETDVPSED--DPTQLVSRGGCGNTQPTIRKDGLKLVGSWKKDRATGDADEPELR 199

Query: 590 IVNSKKVNRILRRMGME-----GFNKKFP-----FIDALPATPPQCR 626
           +++++++  I + + ++     GFN+ F       +  LP  PP  R
Sbjct: 200 VLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPPVR 246


>d1m6ba4 g.3.9.1 (A:480-580) Receptor protein-tyrosine kinase Erbb-3
            Cys-rich domains {Human (Homo sapiens) [TaxId: 9606]}
          Length = 101

 Score = 27.4 bits (60), Expect = 5.7
 Identities = 8/58 (13%), Positives = 13/58 (22%), Gaps = 2/58 (3%)

Query: 1862 QCYQCAKFGHTSKFCHNPVLCNVCYLPKLDQHTCRA--PENVRCVNCKGDHKPTEQRC 1917
            QC  C  +        +    N        +  C +  PE          +      C
Sbjct: 18   QCLSCRNYSRGGVCVTHCNFLNGEPREFAHEAECFSCHPECQPMEGTATCNGSGSDTC 75


>d1igra3 g.3.9.1 (A:150-299) Type 1 insulin-like growth factor
            receptor Cys-rich domain {Human (Homo sapiens) [TaxId:
            9606]}
          Length = 150

 Score = 28.4 bits (62), Expect = 6.2
 Identities = 8/66 (12%), Positives = 13/66 (19%), Gaps = 1/66 (1%)

Query: 1853 CAPFIQRVVQCYQCAKFGHTSKFCHNPVLCNVCYLPKLDQHTCRAPENVRCVNCKGDHK- 1911
            C   ++    C +       +  C     C         +  C          C G    
Sbjct: 3    CPGTMEEKPMCEKTTINNEYNYRCWTTNRCQKMCPSTCGKRACTENNECCHPECLGSCSA 62

Query: 1912 PTEQRC 1917
            P     
Sbjct: 63   PDNDTA 68


>d1y0pa1 a.138.1.3 (A:1-102) Flavocytochrome c3 (respiratory fumarate
            reductase), N-terminal domain {Shewanella frigidimarina
            [TaxId: 56812]}
          Length = 102

 Score = 27.5 bits (60), Expect = 6.2
 Identities = 10/56 (17%), Positives = 14/56 (25%), Gaps = 8/56 (14%)

Query: 1862 QCYQCAKFGHTSKFCHNPVLCNVCYLPKLDQHTCRAPENVRCVNCKGDHKPTEQRC 1917
            QC  C                        + H    P  V C +C   H+ +   C
Sbjct: 35   QCVSCHGTLAEVAETT--------KHEHYNAHASHFPGEVACTSCHSAHEKSMVYC 82


>d1vpza_ b.151.1.1 (A:) Carbon storage regulator homolog, CsrA
           {Pseudomonas aeruginosa [TaxId: 287]}
          Length = 57

 Score = 26.0 bits (58), Expect = 7.0
 Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 3/27 (11%)

Query: 314 KVQEINGDEVRSDEHVFKVPRSVKVHR 340
            V  + G++VR        P+ V VHR
Sbjct: 23  TVLGVKGNQVRIG---VNAPKEVAVHR 46


>d1qo8a1 a.138.1.3 (A:2-102) Flavocytochrome c3 (respiratory fumarate
            reductase), N-terminal domain {Shewanella frigidimarina
            [TaxId: 56812]}
          Length = 101

 Score = 27.1 bits (59), Expect = 9.0
 Identities = 8/42 (19%), Positives = 14/42 (33%), Gaps = 1/42 (2%)

Query: 1876 CHNPVLCNVCYLPKLDQHTCRAPENVRCVNCKGDHKPTEQRC 1917
            CH           + D H     + + C +C   H+  +  C
Sbjct: 38   CHGEYAELANDKLQFDPHNSHLGD-INCTSCHKGHEEPKFYC 78


  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
   0.312    0.128    0.364 

Gapped
Lambda     K      H
   0.267   0.0500    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 7,333,279
Number of extensions: 338728
Number of successful extensions: 581
Number of sequences better than 10.0: 1
Number of HSP's gapped: 581
Number of HSP's successfully gapped: 18
Length of query: 2157
Length of database: 2,407,596
Length adjustment: 100
Effective length of query: 2057
Effective length of database: 1,034,596
Effective search space: 2128163972
Effective search space used: 2128163972
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 60 (27.4 bits)