RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16544
         (63 letters)



>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA,
          national project on protein structural and functional
          analyses; NMR {Homo sapiens} SCOP: g.44.1.4
          Length = 86

 Score = 33.8 bits (77), Expect = 5e-04
 Identities = 8/36 (22%), Positives = 12/36 (33%), Gaps = 2/36 (5%)

Query: 11 SDQALFEKYEDFMVRRVLSIEPDARWCPTPDCGKVF 46
          S  +    +   +   VL  +P   WC    C   F
Sbjct: 2  SSGSSGALFHKKLTEGVLMRDPKFLWC--AQCSFGF 35


>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo
          sapiens}
          Length = 80

 Score = 28.1 bits (62), Expect = 0.064
 Identities = 6/29 (20%), Positives = 13/29 (44%), Gaps = 1/29 (3%)

Query: 15 LFEKYEDFMVRRVLSIEPDARWCPTPDCG 43
           + +Y+ +     + ++     CP P CG
Sbjct: 7  QYNRYQQYGAEECV-LQMGGVLCPRPGCG 34


>3ax1_A Serrate RNA effector molecule; miRNA processing, protein binding;
           2.74A {Arabidopsis thaliana}
          Length = 358

 Score = 28.0 bits (61), Expect = 0.13
 Identities = 10/46 (21%), Positives = 15/46 (32%)

Query: 12  DQALFEKYEDFMVRRVLSIEPDARWCPTPDCGKVFDGQFLVPKHVL 57
           D A  E  +  + +           C    C K+F     V KH+ 
Sbjct: 282 DAAATEALDPHVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVYKHLK 327


>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
           fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
           RED beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 1688

 Score = 27.5 bits (61), Expect = 0.19
 Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 19/61 (31%)

Query: 10  LSDQALFEKYEDFMVRRVL--SIEPDARWCPTPDCGKVFDG------QFLVPKHVLRSLE 61
           + D+ +  KYE  ++       IEP+           +F+G      + +    V   LE
Sbjct: 885 VDDKDVKAKYETSILEHSGIRLIEPE-----------LFNGYNPEKKEMIQEVIVEEDLE 933

Query: 62  P 62
           P
Sbjct: 934 P 934


>1ncs_A Peptide M30F, transcriptional factor SWI5; DNA binding motif,
          transcription regulation, zinc-finger; NMR
          {Saccharomyces cerevisiae} SCOP: g.37.1.1
          Length = 47

 Score = 26.0 bits (57), Expect = 0.28
 Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 1/27 (3%)

Query: 31 EPDARW-CPTPDCGKVFDGQFLVPKHV 56
           PD  + C  P C K F  ++ +  H+
Sbjct: 14 MPDKTFECLFPGCTKTFKRRYNIRSHI 40


>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein
          4, UIP4, structural genomics, riken structural
          genomics/proteomics initiative, RSGI; NMR {Homo
          sapiens} SCOP: g.44.1.1
          Length = 94

 Score = 24.8 bits (54), Expect = 1.2
 Identities = 3/23 (13%), Positives = 11/23 (47%), Gaps = 1/23 (4%)

Query: 6  IHSILSDQALFEKYEDFMVRRVL 28
          I  +++ + + ++Y+     R  
Sbjct: 69 IECMVAAE-IMQRYKKLQFERSG 90


>2dlk_A Novel protein; ZF-C2H2 domain, zinc finger protein 692,
          structural genomics, NPPSFA, national project on
          protein structural and functional analyses; NMR {Homo
          sapiens} SCOP: g.37.1.1 g.37.1.1
          Length = 79

 Score = 24.0 bits (53), Expect = 2.0
 Identities = 5/10 (50%), Positives = 7/10 (70%)

Query: 37 CPTPDCGKVF 46
          C  P CG++F
Sbjct: 10 CDFPGCGRIF 19


>2rpc_A Zinc finger protein ZIC 3; ZF-C2H2, zinc finger protein of the
           cerebellum 3, disease mutation, DNA-binding,
           metal-binding, nucleus, polymorphism; NMR {Homo sapiens}
          Length = 155

 Score = 24.6 bits (54), Expect = 2.4
 Identities = 7/10 (70%), Positives = 8/10 (80%)

Query: 37  CPTPDCGKVF 46
           CP P CGK+F
Sbjct: 93  CPFPGCGKIF 102


>1o50_A CBS domain-containing predicted protein TM0935; CBS-domain PAIR
          fold, structural genomics, joint center for structural
          genomics, JCSG; 1.87A {Thermotoga maritima} SCOP:
          d.37.1.1
          Length = 157

 Score = 24.6 bits (54), Expect = 2.4
 Identities = 5/33 (15%), Positives = 11/33 (33%), Gaps = 4/33 (12%)

Query: 2  KIQYIHSILSDQALFEKYEDFMVRRVLSIEPDA 34
          KI + H  +  +         +  +   +E D 
Sbjct: 5  KIHHHHHHMKVK----DVCKLISLKPTVVEEDT 33


>1va1_A Transcription factor SP1; C2H2 type zinc finger, DNA-binding
          protein; NMR {Homo sapiens}
          Length = 37

 Score = 23.1 bits (50), Expect = 2.7
 Identities = 5/10 (50%), Positives = 6/10 (60%)

Query: 37 CPTPDCGKVF 46
          C    CGKV+
Sbjct: 11 CHIQGCGKVY 20


>3to7_A Histone acetyltransferase ESA1; MYST family; HET: ALY COA; 1.90A
           {Saccharomyces cerevisiae} PDB: 3to6_A* 1fy7_A* 1mja_A*
           1mjb_A* 3to9_A* 1mj9_A*
          Length = 276

 Score = 24.2 bits (52), Expect = 3.4
 Identities = 7/33 (21%), Positives = 17/33 (51%), Gaps = 1/33 (3%)

Query: 7   HSILSDQALFEKYEDFMVRRVLSIEPDA-RWCP 38
           H I  ++ + ++Y     ++  +I+P+   W P
Sbjct: 242 HIIFLNEDILDRYNRLKAKKRRTIDPNRLIWKP 274


>2epa_A Krueppel-like factor 10; transforming growth
          factor-beta-inducible early growth response protein 1,
          TGFB-inducible early growth response protein 1; NMR
          {Homo sapiens}
          Length = 72

 Score = 23.5 bits (51), Expect = 4.1
 Identities = 5/10 (50%), Positives = 6/10 (60%)

Query: 37 CPTPDCGKVF 46
          C  P CGK +
Sbjct: 20 CSHPGCGKTY 29


>2yzq_A Putative uncharacterized protein PH1780;
          sheet/helix/sheet/sheet/helix, structural genomics,
          unknown function, NPPSFA; HET: SAM; 1.63A {Pyrococcus
          horikoshii} SCOP: d.37.1.1 d.37.1.1
          Length = 282

 Score = 24.0 bits (52), Expect = 4.3
 Identities = 3/18 (16%), Positives = 8/18 (44%)

Query: 18 KYEDFMVRRVLSIEPDAR 35
          + +  M +  ++I   A 
Sbjct: 2  RVKTIMTQNPVTITLPAT 19


>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase,
           protein structure initiative; 2.00A {Clostridium
           perfringens}
          Length = 241

 Score = 23.7 bits (52), Expect = 4.7
 Identities = 3/18 (16%), Positives = 8/18 (44%), Gaps = 2/18 (11%)

Query: 14  ALFEKYEDFMVRRVLSIE 31
               K ++ +  R++ I 
Sbjct: 173 RALPKTDEEI--RIVEIV 188


>1pvm_A Conserved hypothetical protein TA0289; structural genomics, CBS
          domain, PSI, protein structure initiative; 1.50A
          {Thermoplasma acidophilum dsm 1728} SCOP: d.37.1.1
          g.41.13.1 PDB: 2qh1_A
          Length = 184

 Score = 23.5 bits (51), Expect = 5.6
 Identities = 2/17 (11%), Positives = 6/17 (35%)

Query: 18 KYEDFMVRRVLSIEPDA 34
          + E  M     ++  + 
Sbjct: 10 RVEKIMNSNFKTVNWNT 26


>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 = 23.4 bits (51), Expect = 5.8
 Identities = 5/17 (29%), Positives = 7/17 (41%)

Query: 18 KYEDFMVRRVLSIEPDA 34
          K ED M R   ++    
Sbjct: 6  KVEDMMTRHPHTLLRTH 22


>2ebt_A Krueppel-like factor 5; C2H2-type zinc-finger, metal BIND,
          transcription factor, kruppel-like factor, GC-box
          promoter elements, structural genomics; NMR {Homo
          sapiens}
          Length = 100

 Score = 23.0 bits (50), Expect = 6.5
 Identities = 5/10 (50%), Positives = 6/10 (60%)

Query: 37 CPTPDCGKVF 46
          C  P C KV+
Sbjct: 18 CDYPGCTKVY 27


>2ou2_A Histone acetyltransferase htatip; structural genomics, structural
           genomics consortium, SGC; HET: ALY ACO; 2.30A {Homo
           sapiens}
          Length = 280

 Score = 23.4 bits (50), Expect = 6.8
 Identities = 6/33 (18%), Positives = 17/33 (51%), Gaps = 1/33 (3%)

Query: 7   HSILSDQALFEKYEDFMVRRVLSIEPDA-RWCP 38
           + +   + + + +E  M++R+L I+     + P
Sbjct: 246 YILTLSEDIVDGHERAMLKRLLRIDSKCLHFTP 278


>2j7j_A Transcription factor IIIA; zinc finger module, alternative
          initiation, nuclear protein, phosphorylation,
          hydrophobic core, zinc, RNA-binding; 1.65A {Xenopus
          laevis} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 PDB: 1un6_B
          2hgh_A
          Length = 85

 Score = 23.0 bits (50), Expect = 6.9
 Identities = 5/10 (50%), Positives = 6/10 (60%)

Query: 37 CPTPDCGKVF 46
          C   +CGK F
Sbjct: 4  CHFENCGKAF 13


>2gli_A Protein (five-finger GLI); protein/DNA complex, transcription/DNA
          complex; HET: DNA; 2.60A {Homo sapiens} SCOP: g.37.1.1
          g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1
          Length = 155

 Score = 22.9 bits (50), Expect = 7.4
 Identities = 3/10 (30%), Positives = 4/10 (40%)

Query: 37 CPTPDCGKVF 46
          C    C K +
Sbjct: 70 CTFEGCRKSY 79


>2hu9_A MERP, mercuric transport protein periplasmic component; copper
          chaperone, iron-sufur protein, COPZ, ATX1, ATOX1, metal
          transport; 1.78A {Archaeoglobus fulgidus}
          Length = 130

 Score = 23.0 bits (49), Expect = 8.1
 Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 1/30 (3%)

Query: 30 IEPDARWCPTPDCGKV-FDGQFLVPKHVLR 58
          I+ D  +C    C  V F+ Q +  K  L+
Sbjct: 31 IKGDFYFCSLESCEVVYFNEQTVFRKGELK 60


>2pfi_A Chloride channel protein CLC-Ka; cystathionine beta synthetase
          (CBS) domains containing protein, transport protein;
          1.60A {Homo sapiens}
          Length = 164

 Score = 23.0 bits (49), Expect = 8.7
 Identities = 4/15 (26%), Positives = 7/15 (46%)

Query: 20 EDFMVRRVLSIEPDA 34
          E FM   + ++  D 
Sbjct: 16 EHFMNHSITTLAKDT 30


  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
   0.326    0.142    0.454 

Gapped
Lambda     K      H
   0.267   0.0575    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,004,859
Number of extensions: 44660
Number of successful extensions: 209
Number of sequences better than 10.0: 1
Number of HSP's gapped: 209
Number of HSP's successfully gapped: 24
Length of query: 63
Length of database: 6,701,793
Length adjustment: 34
Effective length of query: 29
Effective length of database: 5,752,479
Effective search space: 166821891
Effective search space used: 166821891
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.8 bits)