RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy12015
         (96 letters)



>gnl|CDD|218032 pfam04338, DUF481, Protein of unknown function, DUF481.  This
          family includes several proteins of uncharacterized
          function.
          Length = 210

 Score = 28.0 bits (63), Expect = 0.61
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 12/44 (27%)

Query: 19 DFGVIRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHK 62
          + G+   S      NT+  +++  LK         Y+TG WRHK
Sbjct: 2  ELGLSLTSG-----NTDTTSLNGGLK-------LTYRTGDWRHK 33


>gnl|CDD|218790 pfam05876, Terminase_GpA, Phage terminase large subunit (GpA).
           This family consists of several phage terminase large
           subunit proteins as well as related sequences from
           several bacterial species. The DNA packaging enzyme of
           bacteriophage lambda, terminase, is a heteromultimer
           composed of a small subunit, gpNu1, and a large subunit,
           gpA, products of the Nu1 and A genes, respectively.
           Terminase is involved in the site-specific binding and
           cutting of the DNA in the initial stages of packaging.
           It is now known that gpA is actively involved in late
           stages of packaging, including DNA translocation, and
           that this enzyme contains separate functional domains
           for its early and late packaging activities.
          Length = 552

 Score = 28.0 bits (63), Expect = 0.74
 Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 5/31 (16%)

Query: 59  WRHKKFECGQEPK---YQCPHC--PHRSKHK 84
           W   K++ G+ P+   Y CPHC       HK
Sbjct: 214 WERLKWDKGEAPETARYVCPHCGCVIEEHHK 244


>gnl|CDD|222450 pfam13909, zf-H2C2_5, C2H2-type zinc-finger domain. 
          Length = 24

 Score = 25.7 bits (57), Expect = 0.84
 Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 1/24 (4%)

Query: 72 YQCPHCPHRSKHKAHLTTHMAIKH 95
          Y+C HCP+ S     L  H+ + H
Sbjct: 1  YKCSHCPYSST-PKKLERHLKLHH 23


>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
           transition [Transcription / Cell division and chromosome
           partitioning].
          Length = 423

 Score = 27.8 bits (61), Expect = 0.89
 Identities = 20/74 (27%), Positives = 25/74 (33%), Gaps = 24/74 (32%)

Query: 44  KCDV--CEKGYRYKTGLWRHKK-------------------FECGQEPKYQCPHCPHRSK 82
           KC V  C K Y+ + GL  H                     F    +P Y+C  C  R K
Sbjct: 351 KCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKP-YRCEVCDKRYK 409

Query: 83  HKAHLTTHMAIKHY 96
           +   L  H   KH 
Sbjct: 410 NLNGLKYH--RKHS 421


>gnl|CDD|133910 PHA00540, PHA00540, hypothetical protein.
          Length = 715

 Score = 27.3 bits (60), Expect = 1.5
 Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 4/60 (6%)

Query: 15  NTKLDFGVIRNS--SVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKFECGQEPKY 72
           N KL F  + NS   + +   TN L    DL+ +   +GY  K GL  +  F+    P+Y
Sbjct: 458 NDKLQFDKLLNSMFKISQKFYTNYLRTIFDLENNTYVQGYNKKYGLLVNNGFKI--YPRY 515


>gnl|CDD|237098 PRK12421, PRK12421, ATP phosphoribosyltransferase regulatory
           subunit; Provisional.
          Length = 392

 Score = 26.9 bits (60), Expect = 1.7
 Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 9/43 (20%)

Query: 25  NSSVDKSLNT-NVLTVHIDLKC-------DVCE-KGYRYKTGL 58
           ++++ ++L+    L  H+  +        D+ E +GY Y TGL
Sbjct: 239 DAAIRQALDELKTLAAHLKNRWPELPVSIDLAELRGYHYHTGL 281


>gnl|CDD|235840 PRK06599, PRK06599, DNA topoisomerase I; Validated.
          Length = 675

 Score = 26.7 bits (60), Expect = 2.1
 Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 3/50 (6%)

Query: 23  IRNSSVDKSLNTNVLTVHIDLKCDVCEKGYRYKTGLWRHKKF-ECGQEPK 71
            +N + D+        +  + KC  C      K G  R+ KF  C   P+
Sbjct: 618 TKNITRDEDEPIEEEEIVEEEKCPKCGGPLVLKKG--RYGKFLACSGYPE 665


>gnl|CDD|240362 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2
           gamma subunit; Provisional.
          Length = 460

 Score = 25.7 bits (57), Expect = 3.8
 Identities = 10/43 (23%), Positives = 16/43 (37%), Gaps = 7/43 (16%)

Query: 44  KCDVCEKGYRYKTGLWRHKKFECGQEPKYQCPHCPHRSKHKAH 86
           KC  C +   Y++       +   +     CP C H+   K H
Sbjct: 83  KCPKCPRPTCYQS-------YGSSKPDNPPCPGCGHKMTLKRH 118


>gnl|CDD|118278 pfam09746, Membralin, Tumour-associated protein.  Membralin is
           evolutionarily highly conserved; though it seems to
           represent a unique protein family. The protein appears
           to contain several transmembrane regions. In humans it
           is expressed in certain cancers, particularly ovarian
           cancers. Membralin-like gene homologues have been
           identified in plants including grape, cotton and tomato.
          Length = 375

 Score = 25.6 bits (56), Expect = 4.6
 Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)

Query: 18  LDFGVIR-NSSVDKSLNTNVLTVHIDLKCDVC 48
           L++G +R +SS  + LN  VLTV +D   D C
Sbjct: 187 LEYGFLRLSSSTRQRLNIPVLTVQLDPNTDKC 218


>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger. 
          Length = 23

 Score = 23.6 bits (51), Expect = 4.8
 Identities = 9/22 (40%), Positives = 11/22 (50%)

Query: 72 YQCPHCPHRSKHKAHLTTHMAI 93
          Y+CP C    K K+ L  HM  
Sbjct: 1  YRCPECGKVFKSKSALREHMRT 22


>gnl|CDD|240332 PTZ00255, PTZ00255, 60S ribosomal protein L37a; Provisional.
          Length = 90

 Score = 24.7 bits (54), Expect = 6.6
 Identities = 13/28 (46%), Positives = 14/28 (50%), Gaps = 1/28 (3%)

Query: 51 GYRYKTGLWRH-KKFECGQEPKYQCPHC 77
          G RY   L +  KK E  Q  KY CP C
Sbjct: 15 GTRYGASLRKQIKKIEISQHAKYFCPFC 42


>gnl|CDD|206065 pfam13894, zf-C2H2_4, C2H2-type zinc finger.  This family
          contains a number of divergent C2H2 type zinc fingers.
          Length = 24

 Score = 23.4 bits (50), Expect = 6.7
 Identities = 7/24 (29%), Positives = 10/24 (41%)

Query: 72 YQCPHCPHRSKHKAHLTTHMAIKH 95
          ++CP C      K  L  H+   H
Sbjct: 1  FKCPLCGKSFSSKDALKRHLRKHH 24


>gnl|CDD|185067 PRK15112, PRK15112, antimicrobial peptide ABC system ATP-binding
          protein SapF; Provisional.
          Length = 267

 Score = 25.1 bits (55), Expect = 7.1
 Identities = 7/17 (41%), Positives = 11/17 (64%)

Query: 49 EKGYRYKTGLWRHKKFE 65
           K +RY+TG +R +  E
Sbjct: 11 SKTFRYRTGWFRRQTVE 27


>gnl|CDD|150556 pfam09897, DUF2124, Uncharacterized protein conserved in archaea
           (DUF2124).  This domain, found in various hypothetical
           archaeal proteins, has no known function.
          Length = 147

 Score = 24.5 bits (54), Expect = 9.8
 Identities = 10/28 (35%), Positives = 17/28 (60%)

Query: 3   VCLCVMFVRKGTNTKLDFGVIRNSSVDK 30
           VC   MF + G + K+DF +I ++ +D 
Sbjct: 117 VCFMSMFEKAGWDDKIDFDLIIDADIDP 144


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.326    0.138    0.464 

Gapped
Lambda     K      H
   0.267   0.0655    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,299,623
Number of extensions: 306597
Number of successful extensions: 422
Number of sequences better than 10.0: 1
Number of HSP's gapped: 421
Number of HSP's successfully gapped: 28
Length of query: 96
Length of database: 10,937,602
Length adjustment: 63
Effective length of query: 33
Effective length of database: 8,143,300
Effective search space: 268728900
Effective search space used: 268728900
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 (21.7 bits)
S2: 53 (24.3 bits)