RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5020
         (120 letters)



>gnl|CDD|237981 cd00014, CH, Calponin homology domain; actin-binding domain which
           may be present as a single copy or in tandem repeats
           (which increases binding affinity). The CH domain is
           found in cytoskeletal and signal transduction proteins,
           including actin-binding proteins like spectrin,
           alpha-actinin, dystrophin, utrophin, and fimbrin,
           proteins essential for regulation of cell shape
           (cortexillins), and signaling proteins (Vav).
          Length = 107

 Score = 66.2 bits (162), Expect = 2e-15
 Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 1/82 (1%)

Query: 38  IQTHTFKNWVNEHL-KSVGLHVEDLAKDLADGTKLCALVEILQKRKLKFWIRKPTNQHQF 96
            Q      W+N+ L +   + + + + DL DG  LC L+  L    +      P ++ + 
Sbjct: 1   SQKEELLRWINKVLGEYGPVTINNFSTDLKDGIALCKLLNSLSPDLIDKKKINPLSRFKR 60

Query: 97  LENVTCALNAINEDGIKLVNID 118
           LEN+  ALN   + G+ +VN D
Sbjct: 61  LENINLALNFAEKLGVPVVNFD 82


>gnl|CDD|214479 smart00033, CH, Calponin homology domain.  Actin binding domains
           present in duplicate at the N-termini of spectrin-like
           proteins (including dystrophin, alpha-actinin). These
           domains cross-link actin filaments into bundles and
           networks. A calponin homology domain is predicted in
           yeasst Cdc24p.
          Length = 101

 Score = 60.8 bits (148), Expect = 2e-13
 Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 2/80 (2%)

Query: 41  HTFKNWVNEHL-KSVGLHVEDLAKDLADGTKLCALVEILQKRKLKFW-IRKPTNQHQFLE 98
            T   WVN  L +     V + + DL DG  LCAL+  L    +    +    ++ + +E
Sbjct: 1   KTLLRWVNSLLAEYDKPPVTNFSSDLKDGVALCALLNSLSPGLVDKKKVAASLSRFKKIE 60

Query: 99  NVTCALNAINEDGIKLVNID 118
           N+  AL+   + G K+V  +
Sbjct: 61  NINLALSFAEKLGGKVVLFE 80


>gnl|CDD|215849 pfam00307, CH, Calponin homology (CH) domain.  The CH domain is
           found in both cytoskeletal proteins and signal
           transduction proteins. The CH domain is involved in
           actin binding in some members of the family. However in
           calponins there is evidence that the CH domain is not
           involved in its actin binding activity. Most member
           proteins have from two to four copies of the CH domain,
           however some proteins such as calponin have only a
           single copy.
          Length = 104

 Score = 54.6 bits (132), Expect = 5e-11
 Identities = 23/78 (29%), Positives = 34/78 (43%), Gaps = 3/78 (3%)

Query: 41  HTFKNWVNEHL-KSVGLHVEDLAKDLADGTKLCALVEILQKRKLKFWIRKPTNQHQFLEN 99
                W+NE L +  GL V +  +DL DG  LCAL+  L+   +           + LEN
Sbjct: 2   KALLRWINEVLGEYGGLPVTNFFEDLRDGLALCALLNKLRPGLIDLKKVNKNRFDK-LEN 60

Query: 100 VTCALNAINED-GIKLVN 116
           +  AL    +  G+  V 
Sbjct: 61  LNLALEFAEKKLGVPKVL 78


>gnl|CDD|227401 COG5069, SAC6, Ca2+-binding actin-bundling protein fimbrin/plastin
           (EF-Hand superfamily) [Cytoskeleton].
          Length = 612

 Score = 51.5 bits (123), Expect = 1e-08
 Identities = 34/84 (40%), Positives = 41/84 (48%), Gaps = 1/84 (1%)

Query: 35  WVDIQTHTFKNWVNEHLKSVGL-HVEDLAKDLADGTKLCALVEILQKRKLKFWIRKPTNQ 93
           W  +Q  TF  W NE L S G     DL  DL DG KL  L+E LQK     +   P  +
Sbjct: 6   WQKVQKKTFTKWTNEKLISGGQKEFGDLDTDLKDGVKLAQLLEALQKDNAGEYNETPETR 65

Query: 94  HQFLENVTCALNAINEDGIKLVNI 117
              +ENV+  L  I   G+KL NI
Sbjct: 66  IHVMENVSGRLEFIKGKGVKLFNI 89


>gnl|CDD|221350 pfam11971, CAMSAP_CH, CAMSAP CH domain.  This domain is the
          N-terminal CH domain from the CAMSAP proteins.
          Length = 85

 Score = 29.6 bits (67), Expect = 0.11
 Identities = 9/18 (50%), Positives = 13/18 (72%)

Query: 58 VEDLAKDLADGTKLCALV 75
          VE+L +D +DG  L AL+
Sbjct: 13 VENLTRDFSDGCALAALI 30


>gnl|CDD|214718 smart00552, ADEAMc, tRNA-specific and double-stranded RNA adenosine
           deaminase (RNA-specific editase). 
          Length = 374

 Score = 28.5 bits (64), Expect = 0.71
 Identities = 12/24 (50%), Positives = 13/24 (54%)

Query: 74  LVEILQKRKLKFWIRKPTNQHQFL 97
           L E L K  L  WI+KP  Q QF 
Sbjct: 351 LFEALNKAGLGSWIKKPPEQDQFK 374


>gnl|CDD|198352 cd07774, FGGY_1, uncharacterized subgroup; belongs to the FGGY
           family of carbohydrate kinases.  This subfamily is
           composed of uncharacterized carbohydrate kinases. They
           are sequence homologous to bacterial glycerol kinase and
           have been classified as members of the FGGY family of
           carbohydrate kinases. The monomers of FGGY proteins
           contain two large domains, which are separated by a deep
           cleft that forms the active site. This model includes
           both the N-terminal domain, which adopts a ribonuclease
           H-like fold, and the structurally related C-terminal
           domain.
          Length = 430

 Score = 27.3 bits (61), Expect = 2.3
 Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 3/37 (8%)

Query: 35  WVDIQTHTFKNWVNEHLKSVGLHVEDLAKDLADGTKL 71
             DI+    + W  E L+  G+  + L + +  GT +
Sbjct: 176 LFDIRA---REWSEELLEMFGIPPDALPELVPSGTII 209


>gnl|CDD|224456 COG1539, FolB, Dihydroneopterin aldolase [Coenzyme metabolism].
          Length = 121

 Score = 25.7 bits (57), Expect = 5.6
 Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 7/47 (14%)

Query: 44  KNWVNEHLKSVGLHVEDLAKDLADGTKLCALVEILQKRKLKFWIRKP 90
           K  V    K   L +E LA+++AD   L A    ++  ++K  + KP
Sbjct: 62  KEIVEG--KRFAL-IETLAEEIAD--LLLARFPRVELVEVK--VTKP 101


>gnl|CDD|181958 PRK09564, PRK09564, coenzyme A disulfide reductase; Reviewed.
          Length = 444

 Score = 26.2 bits (58), Expect = 5.8
 Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 1/33 (3%)

Query: 13 MKARSPEGHAAKGMQIK-GHEDIWVDIQTHTFK 44
          M AR+PE     G+ +K  HE + VD +  T  
Sbjct: 58 MIARTPEEFIKSGIDVKTEHEVVKVDAKNKTIT 90


>gnl|CDD|240735 cd12289, RRM_LARP6, RNA recognition motif in La-related protein 6
           (LARP6) and similar proteins.  This subfamily
           corresponds to the RRM of LARP6, also termed Acheron
           (Achn), a novel member of the lupus antigen (La) family.
           It is expressed predominantly in neurons and muscle in
           vertebrates. LARP6 functions as a key regulatory protein
           that may play a role in mediating a variety of
           developmental and homeostatic processes in animals,
           including myogenesis, neurogenesis and possibly
           metastasis. LARP6 binds to Ca2+/calmodulin-dependent
           serine protein kinase (CASK), and forms a complex with
           inhibitor of differentiation transcription factors. It
           is structurally related to the La autoantigen and
           contains a La motif (LAM), nuclear localization and
           export (NLS and NES) signals, and an RNA recognition
           motif (RRM), also termed RBD (RNA binding domain) or RNP
           (ribonucleoprotein domain). .
          Length = 93

 Score = 24.9 bits (55), Expect = 6.3
 Identities = 9/33 (27%), Positives = 19/33 (57%), Gaps = 1/33 (3%)

Query: 73  ALVEILQK-RKLKFWIRKPTNQHQFLENVTCAL 104
           AL+ IL+  R +   +++ +++H  L    CA+
Sbjct: 29  ALIRILRPGRTIPPDLKRYSSRHPQLGTKECAV 61


>gnl|CDD|107357 cd06362, PBP1_mGluR, Ligand binding domain of the metabotropic
           glutamate receptors (mGluR).  Ligand binding domain of
           the metabotropic glutamate receptors (mGluR), which are
           members of the family C of G-protein-coupled receptors
           that transduce extracellular signals into G-protein
           activation and ultimately into cellular responses.
           mGluRs bind to glutamate and function as an excitatory
           neurotransmitter; they are involved in learning, memory,
           anxiety, and the perception of pain. Eight subtypes of
           mGluRs have been cloned so far, and are classified into
           three groups according to their sequence similarities,
           transduction mechanisms, and pharmacological profiles.
           Group I is composed of mGlu1R and mGlu5R that both
           stimulate PLC hydrolysis. Group II includes mGlu2R and
           mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R,
           mGlu6R, mGlu7R, and mGlu8R, which form group III.
          Length = 452

 Score = 25.7 bits (57), Expect = 7.1
 Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 3/38 (7%)

Query: 55  GLHVEDLAKDL-ADGTKLCALVEILQKRKLKFWIRKPT 91
            LH  ++ +DL    T LC  ++ +  RKL F++R  +
Sbjct: 368 ALH--NMHRDLCPGTTGLCDAMKPIDGRKLLFYLRNVS 403


  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
   0.319    0.135    0.406 

Gapped
Lambda     K      H
   0.267   0.0696    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,987,780
Number of extensions: 501822
Number of successful extensions: 442
Number of sequences better than 10.0: 1
Number of HSP's gapped: 437
Number of HSP's successfully gapped: 15
Length of query: 120
Length of database: 10,937,602
Length adjustment: 83
Effective length of query: 37
Effective length of database: 7,256,220
Effective search space: 268480140
Effective search space used: 268480140
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 (21.8 bits)
S2: 53 (24.3 bits)