RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy1281
         (144 letters)



>gnl|CDD|217865 pfam04054, Not1, CCR4-Not complex component, Not1.  The Ccr4-Not
           complex is a global regulator of transcription that
           affects genes positively and negatively and is thought
           to regulate transcription factor TFIID.
          Length = 375

 Score =  207 bits (528), Expect = 5e-67
 Identities = 81/112 (72%), Positives = 91/112 (81%), Gaps = 4/112 (3%)

Query: 1   MDIFLNFAVDLDTEGRYLFLNAIANQLRYPNSHTHYFSCLLLYLF----AEANTEAIQEQ 56
           M +  N A +LD EGRY  LNAIANQLRYPNSHTHYFSC++L+LF     E+  E IQEQ
Sbjct: 260 MALLSNLANELDPEGRYYLLNAIANQLRYPNSHTHYFSCVILHLFGSDEWESQKEDIQEQ 319

Query: 57  ITRVLLERLIVNRPHPWGLLITFIELIKNPVYKFWDHEFVHCAPEIEKLFES 108
           ITRVLLERLIVN+PHPWGLLITFIELIKNP YKFW+  F+  APEIEKLF+S
Sbjct: 320 ITRVLLERLIVNKPHPWGLLITFIELIKNPDYKFWELPFIKSAPEIEKLFDS 371



 Score = 38.8 bits (91), Expect = 4e-04
 Identities = 14/21 (66%), Positives = 16/21 (76%)

Query: 108 SGWPLYAQLLIDIFKFLAPFL 128
            GWPLY +LLID+ KFL  FL
Sbjct: 64  KGWPLYVKLLIDLLKFLDEFL 84


>gnl|CDD|227434 COG5103, CDC39, Cell division control protein, negative regulator of
            transcription [Cell division and chromosome partitioning
            / Transcription].
          Length = 2005

 Score =  117 bits (294), Expect = 2e-31
 Identities = 52/101 (51%), Positives = 63/101 (62%), Gaps = 4/101 (3%)

Query: 12   DTEGRYLFLNAIANQLRYPNSHTHYFSCLLLYLF--AEANTEA--IQEQITRVLLERLIV 67
                RY  L AI  QLRYP  HT+ FS + L  F     N +   I+EQ+T VLLER+I 
Sbjct: 1879 GPPKRYFLLTAILAQLRYPEIHTYDFSRVFLKSFKSHGYNPQKLLIKEQMTTVLLERIIC 1938

Query: 68   NRPHPWGLLITFIELIKNPVYKFWDHEFVHCAPEIEKLFES 108
            NRPHPWGLLITF EL+KN  Y FW H ++    EI +LF+S
Sbjct: 1939 NRPHPWGLLITFTELLKNEDYNFWKHPYIKRNDEICRLFDS 1979


>gnl|CDD|215419 PLN02784, PLN02784, alpha-amylase.
          Length = 894

 Score = 28.8 bits (64), Expect = 1.1
 Identities = 9/16 (56%), Positives = 10/16 (62%)

Query: 90  FWDHEFVHCAPEIEKL 105
           F+DH F H  PEI  L
Sbjct: 813 FYDHIFSHYHPEIASL 828


>gnl|CDD|237256 PRK12901, secA, preprotein translocase subunit SecA; Reviewed.
          Length = 1112

 Score = 28.4 bits (64), Expect = 1.5
 Identities = 16/44 (36%), Positives = 22/44 (50%)

Query: 82  LIKNPVYKFWDHEFVHCAPEIEKLFESGWPLYAQLLIDIFKFLA 125
           +I  PV K  D EF    P +E+L E+   L  Q L +  K +A
Sbjct: 312 IISGPVPKGDDQEFEELKPRVERLVEAQRKLATQFLAEAKKLIA 355


>gnl|CDD|225449 COG2896, MoaA, Molybdenum cofactor biosynthesis enzyme [Coenzyme
           metabolism].
          Length = 322

 Score = 27.6 bits (62), Expect = 2.3
 Identities = 10/42 (23%), Positives = 14/42 (33%)

Query: 71  HPWGLLITFIELIKNPVYKFWDHEFVHCAPEIEKLFESGWPL 112
              G  + FIEL+       W  +      EI +  E    L
Sbjct: 177 KERGAQLRFIELMPLGEGNSWRLDKYLSLDEILRKLEERATL 218


>gnl|CDD|213198 cd03231, ABC_CcmA_heme_exporter, Cytochrome c biogenesis
           ATP-binding export protein.  CcmA, the ATP-binding
           component of the bacterial CcmAB transporter. The CCM
           family is involved in bacterial cytochrome c biogenesis.
           Cytochrome c maturation in E. coli requires the ccm
           operon, which encodes eight membrane proteins
           (CcmABCDEFGH). CcmE is a periplasmic heme chaperon that
           binds heme covalently and transfers it onto
           apocytochrome c in the presence of CcmF, CcmG, and CcmH.
           The CcmAB proteins represent an ABC transporter and the
           CcmCD proteins participate in heme transfer to CcmE.
          Length = 201

 Score = 26.3 bits (58), Expect = 5.0
 Identities = 15/44 (34%), Positives = 20/44 (45%)

Query: 56  QITRVLLERLIVNRPHPWGLLITFIELIKNPVYKFWDHEFVHCA 99
           Q  RV L RL+++    W L      L K  V +F +    HCA
Sbjct: 130 QQRRVALARLLLSGRPLWILDEPTTALDKAGVARFAEAMAGHCA 173


>gnl|CDD|217191 pfam02699, YajC, Preprotein translocase subunit.  See.
          Length = 83

 Score = 25.1 bits (56), Expect = 7.1
 Identities = 9/22 (40%), Positives = 14/22 (63%), Gaps = 1/22 (4%)

Query: 116 LLIDIFKFLAPFLPQQQQQQQQ 137
           L+  IF FL    PQQ++Q++ 
Sbjct: 11  LIFAIFYFLL-IRPQQKRQKEH 31


  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
   0.328    0.142    0.449 

Gapped
Lambda     K      H
   0.267   0.0710    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,610,169
Number of extensions: 698986
Number of successful extensions: 994
Number of sequences better than 10.0: 1
Number of HSP's gapped: 989
Number of HSP's successfully gapped: 21
Length of query: 144
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 56
Effective length of database: 7,034,450
Effective search space: 393929200
Effective search space used: 393929200
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: 54 (24.6 bits)