RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9730
         (140 letters)



>gnl|CDD|215724 pfam00110, wnt, wnt family.  Wnt genes have been identified in
           vertebrates and invertebrates but not in plants,
           unicellular eukaryotes or prokaryotes. In humans, 19 WNT
           proteins are known. Because of their insolubility little
           is known about Wnt protein structure, but all have 23 or
           24 Cys residues whose spacing is highly conserved.
           Signal transduction by Wnt proteins (including the
           Wnt/beta-catenin, the Wnt/Ca++, and the Wnt/polarity
           pathway) is mediated by receptors of the Frizzled and
           LDL-receptor-related protein (LRP) families.
          Length = 308

 Score =  168 bits (427), Expect = 9e-53
 Identities = 70/148 (47%), Positives = 92/148 (62%), Gaps = 10/148 (6%)

Query: 2   HCKCHGVSGTCNIRTCWKSLPSKFIEVGKKLVNEYSRAIEIKAGVRTGSLRYS------- 54
            CKCHGVSG+C ++TCWK LP  F EVG  L  +Y  AI+++   R    R         
Sbjct: 162 ECKCHGVSGSCTLKTCWKQLPD-FREVGDLLKEKYDGAIKVEVNNRGKRRRLVRKNPKSK 220

Query: 55  --STNDLVYVTKSPDYCNFDAKLGSYGTSGRACNKSLTGYAGCESMCCGRGYSTKLIEKI 112
             ++ DLVY+  SPDYC  +  LGS GT GR CNK+ +G  GC+ +CCGRGY+T+ +  +
Sbjct: 221 PPTSTDLVYLEDSPDYCERNPSLGSLGTRGRECNKTSSGTDGCDLLCCGRGYNTRTVVVV 280

Query: 113 ERCQCKYHYCCYVKCKICHTWIERQYCN 140
           ERC CK+H+CCYVKCK C   +E   C 
Sbjct: 281 ERCNCKFHWCCYVKCKTCRERVEVYTCK 308


>gnl|CDD|128408 smart00097, WNT1, found in Wnt-1. 
          Length = 305

 Score =  158 bits (401), Expect = 6e-49
 Identities = 68/147 (46%), Positives = 91/147 (61%), Gaps = 10/147 (6%)

Query: 3   CKCHGVSGTCNIRTCWKSLPSKFIEVGKKLVNEYSRAIEI---KAGVRTG------SLRY 53
           CKCHGVSG+C ++TCW  LP  F +VG  L  +Y  A E+   K G          + + 
Sbjct: 160 CKCHGVSGSCTVKTCWLQLPD-FRKVGDYLKEKYDGASEVEVDKRGTNKAPVPKNSTFKP 218

Query: 54  SSTNDLVYVTKSPDYCNFDAKLGSYGTSGRACNKSLTGYAGCESMCCGRGYSTKLIEKIE 113
            +  DLVY+  SPD+C  + K GS GT GR CNK+  G  GC+ +CCGRGY+T+ +E +E
Sbjct: 219 PTETDLVYLESSPDFCEKNPKTGSLGTQGRQCNKTSKGLDGCDLLCCGRGYNTRTVEVVE 278

Query: 114 RCQCKYHYCCYVKCKICHTWIERQYCN 140
           RC CK+H+CCYVKCK C   +E+  C 
Sbjct: 279 RCNCKFHWCCYVKCKQCRETVEKHTCK 305


>gnl|CDD|227677 COG5387, COG5387, Chaperone required for the assembly of the
           mitochondrial F1-ATPase [Posttranslational modification,
           protein turnover, chaperones].
          Length = 264

 Score = 32.1 bits (73), Expect = 0.068
 Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 12/57 (21%)

Query: 18  WKSLPSKFIEVGK----KLVNEYSRAIEIKAG----VRTGSLRYSSTNDLVYVTKSP 66
           W    S+ I+       +LVN    AI+  A     V    LR+  T+ L Y  +SP
Sbjct: 81  W-DAQSESIDPHSMPLTRLVN---TAIDGIAEDSQAVFEQILRFLDTDLLCYRAESP 133


>gnl|CDD|213242 cd03275, ABC_SMC1_euk, ATP-binding cassette domain of eukaryotic
          SMC1 proteins.  The structural maintenance of
          chromosomes (SMC) proteins are large (approximately 110
          to 170 kDa), and each is arranged into five
          recognizable domains. Amino-acid sequence homology of
          SMC proteins between species is largely confined to the
          amino- and carboxy-terminal globular domains. The
          amino-terminal domain contains a 'Walker A'
          nucleotide-binding domain (GxxGxGKS/T, in the
          single-letter amino-acid code), which by mutational
          studies has been shown to be essential in several
          proteins. The carboxy-terminal domain contains a
          sequence (the DA-box) that resembles a 'Walker B'
          motif, and a motif with homology to the signature
          sequence of the ATP-binding cassette (ABC) family of
          ATPases. The sequence homology within the
          carboxy-terminal domain is relatively high within the
          SMC1-SMC4 group, whereas SMC5 and SMC6 show some
          divergence in both of these sequences. In eukaryotic
          cells, the proteins are found as heterodimers of SMC1
          paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
          (formerly known as Rad18).
          Length = 247

 Score = 26.4 bits (59), Expect = 4.7
 Identities = 8/23 (34%), Positives = 12/23 (52%)

Query: 39 AIEIKAGVRTGSLRYSSTNDLVY 61
          AI    G ++  LR  +  DL+Y
Sbjct: 41 AISFVLGEKSSHLRSKNLKDLIY 63


>gnl|CDD|217890 pfam04097, Nic96, Nup93/Nic96.  Nup93/Nic96 is a component of the
           nuclear pore complex. It is required for the correct
           assembly of the nuclear pore complex. In Saccharomyces
           cerevisiae, Nic96 has been shown to be involved in the
           distribution and cellular concentration of the GTPase
           Gsp1. The structure of Nic96 has revealed a mostly alpha
           helical structure.
          Length = 607

 Score = 26.5 bits (59), Expect = 6.5
 Identities = 18/82 (21%), Positives = 23/82 (28%), Gaps = 20/82 (24%)

Query: 52  RYSSTNDLVYVTKSPDYCNFDAKLGSYGTSGR--------------ACNKSLTGYAGC-- 95
              S   L    K P   NF   +G Y  S                A  K  TG + C  
Sbjct: 302 SSESDELLSVDDKDPPPINFARLIGQYTRSFEASDPREALQYLYLIALFKDKTGRSLCHE 361

Query: 96  ---ESMCCGRGYSTKLIEKIER 114
              E +   R +   L+  I  
Sbjct: 362 ALRELVLETREFD-LLLGDINP 382


  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
   0.323    0.136    0.467 

Gapped
Lambda     K      H
   0.267   0.0725    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,490,314
Number of extensions: 525328
Number of successful extensions: 597
Number of sequences better than 10.0: 1
Number of HSP's gapped: 592
Number of HSP's successfully gapped: 16
Length of query: 140
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 53
Effective length of database: 7,078,804
Effective search space: 375176612
Effective search space used: 375176612
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (24.6 bits)