RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3274
         (115 letters)



>2ld7_A Histone deacetylase complex subunit SAP30; transcription; NMR {Mus
           musculus}
          Length = 94

 Score =  102 bits (256), Expect = 3e-30
 Identities = 48/85 (56%), Positives = 64/85 (75%), Gaps = 1/85 (1%)

Query: 27  DSEDDSNEND-ESPDVDLFQLQVNTLRRYKKYFKVTSRPGLNKAQLAETLLKHFKTIPVV 85
           D   DS   D ++P+VDL+QLQVNTLRRYK++FK+ +RPGLNKAQL E +  HFK+IPV 
Sbjct: 7   DDGGDSPVQDIDTPEVDLYQLQVNTLRRYKRHFKLPTRPGLNKAQLVEIVGCHFKSIPVN 66

Query: 86  EKDVLSFFFYTVKSNTNKLDQKNGN 110
           EKD L+ F Y+V+++ NK D K  +
Sbjct: 67  EKDTLTCFIYSVRNDKNKSDLKADS 91


>2kdp_A Histone deacetylase complex subunit SAP30; SIN3, zinc finger
          motif, nucleic acid interaction, nucleus, repressor,
          transcription; NMR {Homo sapiens}
          Length = 71

 Score = 44.7 bits (105), Expect = 1e-07
 Identities = 20/26 (76%), Positives = 24/26 (92%)

Query: 3  ARHIYICEYHKCLIQSVRNKRRRKDS 28
          ARH+YIC+YHK LIQSVRN+R+RK S
Sbjct: 46 ARHLYICDYHKNLIQSVRNRRKRKGS 71


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 32.5 bits (73), Expect = 0.020
 Identities = 16/104 (15%), Positives = 32/104 (30%), Gaps = 33/104 (31%)

Query: 7   YICE---YHKCLIQSVRNKR--------------RRKDSEDDSNENDESPDVDLFQLQVN 49
           Y      +H  L      +R               +K   D +  N     ++  Q    
Sbjct: 472 YFYSHIGHH--LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ---- 525

Query: 50  TLRRYKKYFKVTSRPGLNKAQLAETL--LKHFKTIPVVEKDVLS 91
            L+ YK Y         N  +    +  +  F  +P +E++++ 
Sbjct: 526 QLKFYKPYICD------NDPKYERLVNAILDF--LPKIEENLIC 561



 Score = 26.0 bits (56), Expect = 3.7
 Identities = 14/96 (14%), Positives = 23/96 (23%), Gaps = 32/96 (33%)

Query: 4   RHIYICEYHKCLI--QSVRNKRRRKDSEDDSNENDESPDVDLFQLQVNTL---------- 51
           R +    Y  CL+   +V+N +                  + F L    L          
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAK----------------AWNAFNLSCKILLTTRFKQVTD 279

Query: 52  ----RRYKKYFKVTSRPGLNKAQLAETLLKHFKTIP 83
                             L   ++   LLK+    P
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315


>3nuf_A PRD-containing transcription regulator; structural genomics, joint
           center for structural genomics, J protein structure
           initiative; HET: MSE PG4; 1.38A {Lactobacillus casei}
          Length = 119

 Score = 28.5 bits (63), Expect = 0.26
 Identities = 10/31 (32%), Positives = 16/31 (51%)

Query: 70  QLAETLLKHFKTIPVVEKDVLSFFFYTVKSN 100
            LA+ +++H   + V EK VLS  F   +  
Sbjct: 88  DLADQVVQHIGHLEVAEKYVLSIHFEAAQDK 118


>3ovc_A Hygromycin-B 4-O-kinase; aminoglycoside phosphotransferase,
          structural genomics, PSI- protein structure initiative;
          HET: HY0 PE4; 1.95A {Escherichia coli} PDB: 3tyk_A*
          Length = 362

 Score = 27.5 bits (61), Expect = 1.0
 Identities = 7/35 (20%), Positives = 17/35 (48%)

Query: 53 RYKKYFKVTSRPGLNKAQLAETLLKHFKTIPVVEK 87
          R   YF+   +P L    + + L++ F ++  + +
Sbjct: 14 RENLYFQGMKKPELTATSVEKFLIEKFDSVSDLMQ 48


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
          photosynthetic reaction center, peripheral antenna;
          HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 26.1 bits (56), Expect = 2.5
 Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 6/28 (21%)

Query: 45 QLQVNTLRRYKKYFKVTSRPGLN-KAQL 71
          +LQ  +L+ Y       S P L  KA +
Sbjct: 24 KLQ-ASLKLYAD----DSAPALAIKATM 46


>3sl7_A CBS domain-containing protein CBSX2; CBS-PAIR protein, redox
           regulator, plant CBS domain, thiored chloroplast,
           membrane protein; 1.91A {Arabidopsis thaliana}
          Length = 180

 Score = 25.5 bits (56), Expect = 4.5
 Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 1/30 (3%)

Query: 60  VTSRPGLNKAQLAETLLKH-FKTIPVVEKD 88
           +  R   N    A  LL+  F+ +PVV+ D
Sbjct: 109 LVVRDSTNLEDAARLLLETKFRRLPVVDAD 138


>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A
          {Rhodobacter sphaeroides} SCOP: c.37.1.6
          Length = 290

 Score = 25.4 bits (55), Expect = 4.8
 Identities = 6/46 (13%), Positives = 19/46 (41%)

Query: 11 YHKCLIQSVRNKRRRKDSEDDSNENDESPDVDLFQLQVNTLRRYKK 56
          +H+     ++ +  R+ +  D+  +  S + +  +      R Y +
Sbjct: 44 FHRFNRADMKAELDRRYAAGDATFSHFSYEANELKELERVFREYGE 89


>2o16_A Acetoin utilization protein ACUB, putative; structural genomics,
           unknown function, PSI-2, protein struct initiative;
           1.90A {Vibrio cholerae} SCOP: d.37.1.1
          Length = 160

 Score = 24.6 bits (54), Expect = 8.4
 Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 1/32 (3%)

Query: 60  VTSRPGLNKAQLAETLLKH-FKTIPVVEKDVL 90
            +  P     + A  + KH    +PVV KDVL
Sbjct: 89  TSVAPQAGLKESAIYMQKHKIGCLPVVAKDVL 120


  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
   0.316    0.132    0.376 

Gapped
Lambda     K      H
   0.267   0.0676    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,604,683
Number of extensions: 77856
Number of successful extensions: 199
Number of sequences better than 10.0: 1
Number of HSP's gapped: 199
Number of HSP's successfully gapped: 15
Length of query: 115
Length of database: 6,701,793
Length adjustment: 78
Effective length of query: 37
Effective length of database: 4,523,955
Effective search space: 167386335
Effective search space used: 167386335
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (23.5 bits)