RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16712
         (221 letters)



>gnl|CDD|112624 pfam03820, Mtc, Tricarboxylate carrier. 
          Length = 307

 Score =  289 bits (741), Expect = 7e-99
 Identities = 114/211 (54%), Positives = 142/211 (67%)

Query: 11  RSTPAVVFWQWFNQSFNAVVNYTNRSGGSPVDESLLIKSYCAATGSAVATALSLNHLAKK 70
           R TP VVFWQWFNQSFNA VNYTNRSG SP+    L+ SYCAAT  A+  AL LN L K+
Sbjct: 97  RGTPGVVFWQWFNQSFNAAVNYTNRSGDSPISSRQLLVSYCAATTGALGVALGLNKLVKR 156

Query: 71  APPIFARLVPFSAVAAANMVNIPFMRNKEITDGLPVYDANNNLIGNSQKAAVTGISMVVV 130
            PP+  RLVPF+AVAAAN +NIP MR  E+ +G+ V+D N   +G S+KAA   I  VV+
Sbjct: 157 MPPLLGRLVPFAAVAAANAINIPLMRGNELRNGIDVFDENGQTVGKSKKAAFDAIGQVVL 216

Query: 131 SRIGMATPGMIGIPVILNYLERKGTIRHLKWAPTAIQIGLLAVFLTFTTPMCCALFPQQT 190
           SRI MA PGM+  P+I+N LE++  +R   WA   +Q  L  + LTF TP+ CALFPQ++
Sbjct: 217 SRIAMAVPGMVLPPLIMNRLEKRPWLRRRPWANAPLQTLLCGLGLTFATPLACALFPQRS 276

Query: 191 PIQISSLEPELQERAKKLNPPPTVGYYNKGL 221
            I +  LEPEL +   K   PP   Y+NKGL
Sbjct: 277 SISVDKLEPELHDLKDKDGNPPKTVYFNKGL 307


>gnl|CDD|129880 TIGR00798, mtc, tricarboxylate carrier.  The MTC family consists of
           a limited number of homologues, all from eukaryotes. A
           single member of the family has been functionally
           characterized, the tricarboxylate carrier from rat liver
           mitochondria. The rat liver mitochondrial tricarboxylate
           carrier has been reported to transport citrate,
           cis-aconitate, threo-D-isocitrate, D- and L-tartrate,
           malate, succinate and phosphoenolpyruvate. It presumably
           functions by a proton symport mechanism [Transport and
           binding proteins, Carbohydrates, organic alcohols, and
           acids].
          Length = 318

 Score =  263 bits (673), Expect = 2e-88
 Identities = 114/214 (53%), Positives = 141/214 (65%), Gaps = 3/214 (1%)

Query: 11  RSTPAVVFWQWFNQSFNAVVNYTNRSGGSPVDESLLIKSYCAATGSAVATALSLNHLAKK 70
           RSTP VVFWQW NQSFNA VNYTNRSG SP+  S L+ SYCAA   A   AL LN + KK
Sbjct: 105 RSTPGVVFWQWINQSFNAAVNYTNRSGDSPLTLSQLLVSYCAAVTGACGVALGLNMMVKK 164

Query: 71  AP---PIFARLVPFSAVAAANMVNIPFMRNKEITDGLPVYDANNNLIGNSQKAAVTGISM 127
           +P   P+  RLVPF+AVA AN +NIP MR  E+T+G+ V+D +   +G S+KAA   I+ 
Sbjct: 165 SPSLSPLIGRLVPFAAVAVANAINIPMMRGNELTEGIEVFDEDGETVGKSKKAAALAIAQ 224

Query: 128 VVVSRIGMATPGMIGIPVILNYLERKGTIRHLKWAPTAIQIGLLAVFLTFTTPMCCALFP 187
           VV+SR+ MA P M+  P+I+N LER   +R   W    IQ  L  + L F TP+ CALFP
Sbjct: 225 VVLSRVIMAVPDMVMPPLIMNRLERTAWLRARPWMQIPIQTLLCGLGLAFATPLACALFP 284

Query: 188 QQTPIQISSLEPELQERAKKLNPPPTVGYYNKGL 221
           Q++ I +  LEP LQ   +KL  PP V YYNKGL
Sbjct: 285 QKSAISVDKLEPSLQNLIQKLGNPPKVVYYNKGL 318


>gnl|CDD|183059 PRK11253, ldcA, L,D-carboxypeptidase A; Provisional.
          Length = 305

 Score = 36.1 bits (84), Expect = 0.009
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 11/70 (15%)

Query: 133 IGMATPGMIGIPVILNYLERKGTIRHLKWAP---------TAIQIGLLAV--FLTFTTPM 181
           I +A  G  G   +L  ++ +G     +  P         TAIQ+ LLA    +TF+ PM
Sbjct: 69  IVLAVRGGYGASRLLAGIDWQGLAARQQDDPLLIVGHSDFTAIQLALLAQANVITFSGPM 128

Query: 182 CCALFPQQTP 191
             A F  +T 
Sbjct: 129 LAADFGAETL 138


>gnl|CDD|140256 PTZ00229, PTZ00229, variable surface protein Vir30; Provisional.
          Length = 317

 Score = 29.1 bits (65), Expect = 2.0
 Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 1/60 (1%)

Query: 20 QWFNQSFNAVVNYTNRSGG-SPVDESLLIKSYCAATGSAVATALSLNHLAKKAPPIFARL 78
          +W  + F  + NY  ++     +D S    S C +   A  + L +N  AK     F +L
Sbjct: 12 KWIYKFFKDIDNYIAKAKDVESIDISDDAPSACTSFSRAWESKLKINGTAKNICEKFIKL 71


>gnl|CDD|237299 PRK13197, PRK13197, pyrrolidone-carboxylate peptidase; Provisional.
          Length = 215

 Score = 27.9 bits (63), Expect = 3.9
 Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 2/43 (4%)

Query: 64  LNHLAKKAPPIFARLV--PFSAVAAANMVNIPFMRNKEITDGL 104
           L+ L KK P I A  +  P+    A N    P M  ++I  GL
Sbjct: 151 LHLLDKKYPNIRAGFIHIPYLPEQAVNKPGTPSMSLEDIVRGL 193


>gnl|CDD|213769 TIGR03073, release_rtcB, release factor H-coupled RctB family
           protein.  Members of this family are related to RctB.
           RctB a protein of known structure but unknown function
           that often is encoded near RNA cyclase and therefore is
           suggested to be a tRNA or mRNA processing enzyme. This
           family of RctB-like proteins in encoded upstream of, and
           apparently is translationally coupled to, the putative
           peptide chain release factor RF-H (TIGR03072), product
           of the prfH gene. Note that a large deletion at the
           junction between this gene and the prfH gene in
           Escherichia coli K-12 marks both as probable pseudogenes
           [Protein synthesis, Other].
          Length = 356

 Score = 28.2 bits (63), Expect = 4.0
 Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 5/46 (10%)

Query: 101 TDGLPVYDANNNLIGNSQKAAVTGISMVVVSRIGMATPGMIGIPVI 146
             G P+ D N+NL+  +      G     + R G ATP   G  VI
Sbjct: 218 AKGDPLLDVNHNLVSPATIEGEDGW----LHRKG-ATPADQGPVVI 258


>gnl|CDD|222140 pfam13452, zf-MaoC, Metal-binding domain of MaoC dehydratase. 
          Length = 132

 Score = 27.3 bits (61), Expect = 4.4
 Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 6/56 (10%)

Query: 47 IKSYCAATGSA------VATALSLNHLAKKAPPIFARLVPFSAVAAANMVNIPFMR 96
          ++ +  A G           A +  +    APP F  ++ F A A    + I   R
Sbjct: 19 VREFARAIGDTNPIYWDEEAARAAGYDGLPAPPTFLFVLGFGAPAFLEDLGIDLSR 74


>gnl|CDD|193453 pfam12980, DUF3864, Domain of Unknown Function with PDB structure
           (DUF3864).  Domain based on 366-449 domain of PDB:3LM3
           which is encoded by the BDI_3119 gene from
           Parabacteroides distasonis atcc 8503.
          Length = 81

 Score = 26.5 bits (58), Expect = 4.5
 Identities = 10/27 (37%), Positives = 14/27 (51%)

Query: 184 ALFPQQTPIQISSLEPELQERAKKLNP 210
            L PQ  P+ ++ L  E QE  +K  P
Sbjct: 52  GLRPQDKPVLLTELAAEHQELIRKYYP 78


>gnl|CDD|239977 cd04604, CBS_pair_KpsF_GutQ_assoc, This cd contains two tandem
           repeats of the cystathionine beta-synthase (CBS pair)
           domains associated with KpsF/GutQ domains in the API
           [A5P (D-arabinose 5-phosphate) isomerase] protein.
           These APIs catalyze the conversion of the pentose
           pathway intermediate D-ribulose 5-phosphate into A5P, a
           precursor of 3-deoxy-D-manno-octulosonate, which is an
           integral carbohydrate component of various glycolipids
           coating the surface of the outer membrane of
           Gram-negative bacteria, including lipopolysaccharide and
           many group 2 K-antigen capsules. CBS is a small domain
           originally identified in cystathionine beta-synthase and
           subsequently found in a wide range of different
           proteins. CBS domains usually come in tandem repeats,
           which associate to form a so-called Bateman domain or a
           CBS pair which is reflected in this model.  The
           interface between the two CBS domains forms a cleft that
           is a potential ligand binding site. The CBS pair
           coexists with a variety of other functional domains. It
           has been proposed that the CBS domain may play a
           regulatory role, although its exact function is unknown.
          Length = 114

 Score = 26.3 bits (59), Expect = 7.5
 Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 6/33 (18%)

Query: 83  AVAAANMVNIPFMRNKEITDGLPVYDANNNLIG 115
           A  A  +     M   +IT  LPV D N   +G
Sbjct: 78  AAEALEL-----MEENKIT-ALPVVDDNGRPVG 104


>gnl|CDD|224950 COG2039, Pcp, Pyrrolidone-carboxylate peptidase (N-terminal
           pyroglutamyl peptidase) [Posttranslational modification,
           protein turnover, chaperones].
          Length = 207

 Score = 26.9 bits (60), Expect = 7.9
 Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 2/43 (4%)

Query: 64  LNHLAKKAPPIFARL--VPFSAVAAANMVNIPFMRNKEITDGL 104
           L+HLAKK PP+ A    VP+    AA   N P M    I  G+
Sbjct: 150 LHHLAKKGPPVRAGFIHVPYLPEQAARKPNTPSMSLDTIVRGV 192


>gnl|CDD|147144 pfam04834, Adeno_E3_14_5, Early E3 14.5 kDa protein.  The E3B 14.5
           kDa was first identified in Human adenovirus type 5. It
           is an integral membrane protein oriented with its C
           terminus in the cytoplasm. It functions to down-regulate
           the epidermal growth factor receptor and prevent tumour
           necrosis factor cytolysis. It achieves this through the
           interaction with E3 10.4 kDa protein.
          Length = 97

 Score = 25.9 bits (57), Expect = 7.9
 Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 5/32 (15%)

Query: 187 PQQTPIQISSLEPELQERAKKLNPPPTVGYYN 218
           PQ  P+Q     PE Q R      P  + Y+N
Sbjct: 65  PQHIPLQQPPPPPEPQPR-----APSAISYFN 91


>gnl|CDD|217540 pfam03408, Foamy_virus_ENV, Foamy virus envelope protein.
           Expression of the envelope (Env) glycoprotein is
           essential for viral particle egress. This feature is
           unique to the Spumavirinae, a subclass of the
           Retroviridae.
          Length = 985

 Score = 27.0 bits (60), Expect = 9.1
 Identities = 15/34 (44%), Positives = 17/34 (50%)

Query: 114 IGNSQKAAVTGISMVVVSRIGMATPGMIGIPVIL 147
           IGN       GI     S +G A P +IGI VIL
Sbjct: 933 IGNFLSKTAQGIFGTAFSLLGYAKPILIGIGVIL 966


  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
   0.320    0.134    0.406 

Gapped
Lambda     K      H
   0.267   0.0707    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,398,385
Number of extensions: 1057761
Number of successful extensions: 1000
Number of sequences better than 10.0: 1
Number of HSP's gapped: 997
Number of HSP's successfully gapped: 27
Length of query: 221
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 128
Effective length of database: 6,812,680
Effective search space: 872023040
Effective search space used: 872023040
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.8 bits)