RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy9170
         (94 letters)



>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA,
           national project on protein structural and functional
           analyses; NMR {Homo sapiens} SCOP: d.58.7.1
          Length = 101

 Score = 69.9 bits (171), Expect = 2e-17
 Identities = 26/48 (54%), Positives = 33/48 (68%)

Query: 8   QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHS 55
           QAFLE+A E AA TMV Y++     LR + +Y+Q+SNHKELKT    S
Sbjct: 53  QAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHKELKTSGPSS 100


>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
           complex, RNA binding protein/RNA complex; NMR {Homo
           sapiens} SCOP: d.58.7.1
          Length = 119

 Score = 67.6 bits (165), Expect = 2e-16
 Identities = 29/50 (58%), Positives = 38/50 (76%)

Query: 8   QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNA 57
           QAF+EM  E AA+TMV Y+T+    LRG+ +Y+QFSNHKELKTD + + A
Sbjct: 69  QAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKELKTDSSPNQA 118


>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project
           on protein structural and functional analyses; NMR {Mus
           musculus} SCOP: d.58.7.1
          Length = 102

 Score = 66.8 bits (163), Expect = 3e-16
 Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 8   QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSN-HKELKTDQTH 54
           +AF+EMA    A   V Y+TT  A + G+ V V  S  +K +K+  + 
Sbjct: 54  EAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKYKRIKSGPSS 101


>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project
           on protein structural and functional analyses; NMR {Mus
           musculus} SCOP: d.58.7.1
          Length = 112

 Score = 65.7 bits (160), Expect = 8e-16
 Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 1/48 (2%)

Query: 8   QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSN-HKELKTDQTH 54
           QAF+EM     A  MV +        +GR V V  S  +K+L +  + 
Sbjct: 64  QAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEKYKKLVSGPSS 111


>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
           protein; NMR {Homo sapiens} SCOP: d.58.7.1
          Length = 105

 Score = 64.9 bits (158), Expect = 2e-15
 Identities = 29/50 (58%), Positives = 38/50 (76%)

Query: 8   QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNA 57
           QAF+EM  E AA+TMV Y+T+    LRG+ +Y+QFSNHKELKTD + + A
Sbjct: 54  QAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKELKTDSSPNQA 103


>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics,
           RRM domain, riken structural genomics/proteomics
           initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1
          Length = 104

 Score = 61.7 bits (150), Expect = 3e-14
 Identities = 9/48 (18%), Positives = 18/48 (37%)

Query: 8   QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHS 55
           QA +E  +  +A   VT+       + G+  +  +S  K +       
Sbjct: 53  QALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKRITRPGNSG 100


>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
          protein binding, nucleus; 2.04A {Homo sapiens}
          Length = 100

 Score = 56.7 bits (137), Expect = 2e-12
 Identities = 10/41 (24%), Positives = 17/41 (41%)

Query: 8  QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKEL 48
          QA +E  D   A   V Y       + G   +V +S  +++
Sbjct: 59 QALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTSQKI 99


>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics,
           NPPSFA, national project on protein structural and
           functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
          Length = 115

 Score = 27.6 bits (62), Expect = 0.33
 Identities = 8/49 (16%), Positives = 20/49 (40%), Gaps = 12/49 (24%)

Query: 8   QAFLEMADECAASTMVTYFTTCVAQ-----LRGRAVYVQFSNHKELKTD 51
           QAF+   ++  A          +       L G+ + ++F  +K+ ++ 
Sbjct: 69  QAFITFPNKEIA-------WQALHLVNGYKLYGKILVIEFGKNKKQRSS 110


>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA
           recognition motif, vincu alpha-actinin, nucleus, RNA
           binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E
          Length = 284

 Score = 26.9 bits (60), Expect = 1.0
 Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 2/50 (4%)

Query: 9   AFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNAL 58
            F E   + +A+   +        L  R +YV +++  +L     HS  L
Sbjct: 140 GFAEYMKKDSAARAKSDLLG--KPLGPRTLYVHWTDAGQLTPALLHSRCL 187


>2dls_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; PDZ
          domain, arhgef11, KIAA0380, structural genomics,
          NPPSFA; NMR {Homo sapiens} PDB: 2omj_A 2os6_A
          Length = 93

 Score = 26.1 bits (58), Expect = 1.2
 Identities = 8/27 (29%), Positives = 15/27 (55%), Gaps = 1/27 (3%)

Query: 65 GIILRPATHYQV-HLIRSACQVYLIVC 90
          G ++  ++H +V  LI+S   V L + 
Sbjct: 58 GTMVTNSSHLEVVKLIKSGAYVALTLL 84


>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP,
          RNA, spicing, translation; NMR {Homo sapiens} SCOP:
          d.58.7.1 d.58.7.1
          Length = 198

 Score = 26.4 bits (58), Expect = 1.5
 Identities = 9/50 (18%), Positives = 21/50 (42%), Gaps = 2/50 (4%)

Query: 8  QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNA 57
           A ++MAD   A   +++       L G+ + +  S H+ ++  +     
Sbjct: 43 NALVQMADGNQAQLAMSHLNGHK--LHGKPIRITLSKHQNVQLPREGQED 90


>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA,
          national project on protein structural and functional
          analyses; NMR {Homo sapiens} SCOP: d.58.7.1
          Length = 109

 Score = 25.5 bits (56), Expect = 2.1
 Identities = 9/45 (20%), Positives = 16/45 (35%)

Query: 9  AFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQT 53
          AF+E     AA+           QL G  + V ++  +    +  
Sbjct: 55 AFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAEPEIDVDEDV 99


>1txl_A Metal-binding protein YODA; E.coli, structural genomics, NEW fold,
           PSI, protein structure initiative; 1.70A {Escherichia
           coli} SCOP: b.60.1.4 PDB: 1s7d_A 1oej_A 1oee_A 1oek_A
          Length = 215

 Score = 25.4 bits (55), Expect = 2.8
 Identities = 13/53 (24%), Positives = 19/53 (35%), Gaps = 4/53 (7%)

Query: 2   YDYDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTH 54
           YDYD      ++    +    V Y   C         Y+QFS+H       +H
Sbjct: 127 YDYDG----YKILTYKSGKKGVRYLFECKDPESKAPKYIQFSDHIIAPRKSSH 175


>3get_A Histidinol-phosphate aminotransferase; NP_281508.1, structural
           genomics, joint center for structural genomics; HET: LLP
           MSE; 2.01A {Campylobacter jejuni subsp}
          Length = 365

 Score = 24.4 bits (54), Expect = 6.6
 Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 13/60 (21%)

Query: 34  RGRAVYVQFSNHKELKTDQTHSNALLLHLTI-------------GIILRPATHYQVHLIR 80
               +Y +F+    +K   +++N +                   GII+R    Y ++ IR
Sbjct: 285 SQMELYKEFAKKHNIKIIDSYTNFITYFFDEKNSTDLSEKLLKKGIIIRNLKSYGLNAIR 344


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.330    0.137    0.411 

Gapped
Lambda     K      H
   0.267   0.0741    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,390,677
Number of extensions: 62900
Number of successful extensions: 184
Number of sequences better than 10.0: 1
Number of HSP's gapped: 183
Number of HSP's successfully gapped: 26
Length of query: 94
Length of database: 6,701,793
Length adjustment: 61
Effective length of query: 33
Effective length of database: 4,998,612
Effective search space: 164954196
Effective search space used: 164954196
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 51 (23.4 bits)