RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3618
         (136 letters)



>gnl|CDD|219256 pfam06991, Prp19_bind, Splicing factor, Prp19-binding domain.  This
           family represents the C-terminus (approximately 300
           residues) of proteins that are involved as binding
           partners for Prp19 as part of the nuclear pore complex.
           The family in Drosophila is necessary for pre-mRNA
           splicing, and the human protein has been found in
           purifications of the spliceosome. In the past this
           family was thought, erroneously, to be associated with
           microfibrillin.
          Length = 277

 Score =  114 bits (287), Expect = 3e-32
 Identities = 58/87 (66%), Positives = 72/87 (82%)

Query: 35  DSEEDILKRDFSSATLDDHFDKTVLPKVMQVKNFGRSGRTKYSHLVDQDTTQFDSPWLSE 94
           D E+++LKRDFS ATL+DHFDKT+LPKVMQVKNFGR+GRTKY+HLV++DTT+FDS W SE
Sbjct: 191 DEEDEVLKRDFSEATLEDHFDKTILPKVMQVKNFGRAGRTKYTHLVNEDTTKFDSAWYSE 250

Query: 95  TSQNHKFHLNQAAGMKQVFVKPSLSKR 121
           ++ N KF   +A GM+ VF KP   KR
Sbjct: 251 SNLNLKFSNKRAGGMRSVFDKPLGKKR 277



 Score = 33.7 bits (77), Expect = 0.017
 Identities = 16/38 (42%), Positives = 25/38 (65%)

Query: 1   MVEDEVRAEDAKNRIKNGEEARLEDVNTDDENDEDSEE 38
           +VE+EV+ E    +     EA ++DV+TDDEN+E+  E
Sbjct: 81  IVEEEVKKELELKKRNTLLEANIDDVDTDDENEEEEYE 118


>gnl|CDD|236655 PRK10147, phnH, carbon-phosphorus lyase complex subunit; Validated.
          Length = 196

 Score = 29.1 bits (66), Expect = 0.59
 Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 2/30 (6%)

Query: 79  LVDQDTTQFDSPWL--SETSQNHKFHLNQA 106
           L D DT  + +P L      Q  +FH    
Sbjct: 56  LCDNDTPLWLAPALDNDAVRQWLRFHTGAP 85


>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter
           subunit G; Reviewed.
          Length = 197

 Score = 28.5 bits (63), Expect = 0.93
 Identities = 17/51 (33%), Positives = 26/51 (50%)

Query: 2   VEDEVRAEDAKNRIKNGEEARLEDVNTDDENDEDSEEDILKRDFSSATLDD 52
           +E E R E    R    E+ R  +  T +E  +DSE +I+++D S    DD
Sbjct: 142 MEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESDD 192


>gnl|CDD|215628 PLN03196, PLN03196, MOC1-like protein; Provisional.
          Length = 487

 Score = 28.9 bits (65), Expect = 0.94
 Identities = 8/28 (28%), Positives = 16/28 (57%)

Query: 19  EEARLEDVNTDDENDEDSEEDILKRDFS 46
            E    +  +D+E+D+D +E + +R  S
Sbjct: 459 LEMPGSESVSDEEDDDDDDEVLYRRTVS 486


>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family.  Emg1 and Nop14 are novel
           proteins whose interaction is required for the
           maturation of the 18S rRNA and for 40S ribosome
           production.
          Length = 809

 Score = 28.8 bits (65), Expect = 0.98
 Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 5/54 (9%)

Query: 3   EDEVRAEDAKNRIKNGEEARLEDVNTDDENDEDSEEDILKRDFSSATLDDHFDK 56
           E+E+  E+A+ R+K  E  RL  +  ++E+DE+ E+     D     LDD F+ 
Sbjct: 260 EEELAKEEAE-RLKKLEAERLRRMRGEEEDDEEEEDSKESAD----DLDDEFEP 308


>gnl|CDD|234157 TIGR03287, methan_mark_16, putative methanogenesis marker 16
          metalloprotein.  Members of this protein family, to
          date, are found in a completed prokaryotic genome if
          and only if the species is one of the archaeal
          methanogens. The exact function is unknown, but likely
          is linked to methanogenesis or a process closely
          connected to it. This protein is a predicted to bind
          FeS clusters, based on the presence of two copies of
          the Fer4 domain (pfam00037), with each copy having four
          Cys residues invariant across all members [Energy
          metabolism, Methanogenesis].
          Length = 391

 Score = 28.2 bits (63), Expect = 1.6
 Identities = 11/22 (50%), Positives = 18/22 (81%)

Query: 6  VRAEDAKNRIKNGEEARLEDVN 27
          + A++ K+RI+NGEE  +EDV+
Sbjct: 2  LTADELKDRIRNGEEDTVEDVD 23


>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
            (vWA) domain [General function prediction only].
          Length = 4600

 Score = 27.3 bits (60), Expect = 3.3
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 3    EDEVRA-EDAKNRIKNGEEARLEDVNTDDENDEDSEEDILKRDFSSATLD 51
            ED+ +A ED   + K  EE   +DV  DDE   D +E+  +    +  LD
Sbjct: 3939 EDDNKALEDKDRQEKEDEEEMSDDVGIDDEIQPDIQENNSQPPPENEDLD 3988


>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein.  CDC45 is an essential gene
           required for initiation of DNA replication in S.
           cerevisiae, forming a complex with MCM5/CDC46.
           Homologues of CDC45 have been identified in human, mouse
           and smut fungus among others.
          Length = 583

 Score = 26.9 bits (60), Expect = 4.7
 Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 4/55 (7%)

Query: 1   MVEDEVRAEDAKNRIKNGEEARLEDVNTDDENDEDSEEDILKRDFSSATLDDHFD 55
            +E+E++ E   +         LE+ + DDE  ++ +E+  K +      DD  D
Sbjct: 105 DIEEELQDEPRYDDA----YRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDD 155


>gnl|CDD|224173 COG1253, TlyC, Hemolysins and related proteins containing CBS
           domains [General function prediction only].
          Length = 429

 Score = 26.5 bits (59), Expect = 5.2
 Identities = 14/28 (50%), Positives = 18/28 (64%), Gaps = 6/28 (21%)

Query: 23  LEDV------NTDDENDEDSEEDILKRD 44
           LED+         DE+DED EEDI++RD
Sbjct: 320 LEDIIEEIVGEIPDEHDEDEEEDIIQRD 347


>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid). 
          Members of this family are bacterial proteins with a
          conserved motif [KR]FYDLN, sometimes flanked by a pair
          of CXXC motifs, followed by a long region of low
          complexity sequence in which roughly half the residues
          are Asp and Glu, including multiple runs of five or
          more acidic residues. The function of members of this
          family is unknown.
          Length = 104

 Score = 25.7 bits (57), Expect = 5.3
 Identities = 14/47 (29%), Positives = 24/47 (51%)

Query: 6  VRAEDAKNRIKNGEEARLEDVNTDDENDEDSEEDILKRDFSSATLDD 52
            A+      K+ +E   +DV  DD++D+D ++D+   D     LDD
Sbjct: 46 PAADAEDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDLDDDDVDLDD 92


>gnl|CDD|235663 PRK05989, cobN, cobaltochelatase subunit CobN; Reviewed.
          Length = 1244

 Score = 26.0 bits (58), Expect = 7.3
 Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 7/35 (20%)

Query: 20  EARL-EDVNTDDENDEDSEEDILKRDFSSATLDDH 53
            A L  D+   +  DED  +D L        LD +
Sbjct: 656 AANLDRDLGLSEAPDEDDFDDFLLH------LDGY 684


>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed.
          Length = 668

 Score = 25.9 bits (58), Expect = 9.7
 Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 13/56 (23%)

Query: 9   EDAKNRIKNGEEAR---LEDV-NTDDE------NDEDSEEDILKRDFSSATLDDHF 54
            +  +R    EEAR   LE +   DDE        E+  E+ +K     ATL    
Sbjct: 184 AELLDRA---EEAREELLEALAEFDDELMEKYLEGEELSEEEIKAGLRKATLAGEI 236


>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22.
          The mitochondrial protein translocase family, which is
          responsible for movement of nuclear encoded
          pre-proteins into mitochondria, is very complex with at
          least 19 components. These proteins include several
          chaperone proteins, four proteins of the outer membrane
          translocase (Tom) import receptor, five proteins of the
          Tom channel complex, five proteins of the inner
          membrane translocase (Tim) and three "motor" proteins.
          This family represents the Tom22 proteins. The N
          terminal region of Tom22 has been shown to have
          chaperone-like activity, and the C terminal region
          faces the intermembrane face.
          Length = 136

 Score = 25.3 bits (56), Expect = 9.7
 Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 1/41 (2%)

Query: 1  MVE-DEVRAEDAKNRIKNGEEARLEDVNTDDENDEDSEEDI 40
          MV+  EV  E  + +    +    E+ + DDE+D D++ DI
Sbjct: 1  MVKLTEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDI 41


>gnl|CDD|227897 COG5610, COG5610, Predicted hydrolase (HAD superfamily) [General
          function prediction only].
          Length = 635

 Score = 25.7 bits (56), Expect = 9.9
 Identities = 8/33 (24%), Positives = 15/33 (45%)

Query: 2  VEDEVRAEDAKNRIKNGEEARLEDVNTDDENDE 34
            D +R E  + R +N  + + E  N D+  + 
Sbjct: 42 NFDRIRVEVEQYRYRNVCKNKYESTNFDEILNL 74


  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
   0.307    0.123    0.334 

Gapped
Lambda     K      H
   0.267   0.0690    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,467,216
Number of extensions: 551403
Number of successful extensions: 738
Number of sequences better than 10.0: 1
Number of HSP's gapped: 694
Number of HSP's successfully gapped: 70
Length of query: 136
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 49
Effective length of database: 7,078,804
Effective search space: 346861396
Effective search space used: 346861396
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 54 (24.7 bits)