RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11498
         (143 letters)



>gnl|CDD|216601 pfam01607, CBM_14, Chitin binding Peritrophin-A domain.  This
          domain is called the Peritrophin-A domain and is found
          in chitin binding proteins particularly peritrophic
          matrix proteins of insects and animal chitinases.
          Copies of the domain are also found in some
          baculoviruses. Relevant references that describe
          proteins with this domain include. It is an
          extracellular domain that contains six conserved
          cysteines that probably form three disulphide bridges.
          Chitin binding has been demonstrated for a protein
          containing only two of these domains.
          Length = 53

 Score = 38.2 bits (89), Expect = 6e-05
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 18 KYGIYAESSACSTNYIKCEEGYPYLQPCEPGLAYDDRVHKCNWPDELKD 66
            G+Y +   CS  Y +C  G   +  C  GL +D  +  C++PD + D
Sbjct: 5  PDGLYPDPGDCS-KYYQCSNGKAVVFTCPAGLVFDPALGTCDYPDNVVD 52



 Score = 31.3 bits (71), Expect = 0.026
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 98  FPVPGDRERLITCVDGHPRLISCGDGKLFDEASLTCLGPEDYTD 141
           +P PGD  +   C +G   + +C  G +FD A  TC  P++  D
Sbjct: 9   YPDPGDCSKYYQCSNGKAVVFTCPAGLVFDPALGTCDYPDNVVD 52


>gnl|CDD|214696 smart00494, ChtBD2, Chitin-binding domain type 2. 
          Length = 49

 Score = 37.8 bits (88), Expect = 9e-05
 Identities = 11/49 (22%), Positives = 18/49 (36%)

Query: 13 PPCEFKYGIYAESSACSTNYIKCEEGYPYLQPCEPGLAYDDRVHKCNWP 61
            C  +           + Y +C  G P +  C  GL ++     C+WP
Sbjct: 1  NECPGRGDGLYPHPTDCSKYYQCSNGRPIVGSCPAGLVFNPATQTCDWP 49



 Score = 33.6 bits (77), Expect = 0.003
 Identities = 13/37 (35%), Positives = 20/37 (54%)

Query: 97  RFPVPGDRERLITCVDGHPRLISCGDGKLFDEASLTC 133
            +P P D  +   C +G P + SC  G +F+ A+ TC
Sbjct: 10  LYPHPTDCSKYYQCSNGRPIVGSCPAGLVFNPATQTC 46


>gnl|CDD|117542 pfam08976, DUF1880, Domain of unknown function (DUF1880).  This
           domain is found predominantly in DJ binding protein. It
           has no known function.
          Length = 122

 Score = 27.1 bits (59), Expect = 2.4
 Identities = 11/35 (31%), Positives = 18/35 (51%)

Query: 13  PPCEFKYGIYAESSACSTNYIKCEEGYPYLQPCEP 47
           PP + + G+ ++S  C+        G P LQ C+P
Sbjct: 74  PPQDLRPGLKSQSHPCTPASTTVIPGTPPLQNCDP 108


>gnl|CDD|236884 PRK11234, nfrB, bacteriophage N4 adsorption protein B; Provisional.
          Length = 727

 Score = 27.4 bits (61), Expect = 3.1
 Identities = 11/19 (57%), Positives = 11/19 (57%), Gaps = 4/19 (21%)

Query: 121 GDGKLFDEASLTCLGPEDY 139
           GDG  FD  SLT    EDY
Sbjct: 248 GDGIAFDVQSLT----EDY 262


>gnl|CDD|173550 PTZ00357, PTZ00357, methyltransferase; Provisional.
          Length = 1072

 Score = 27.0 bits (59), Expect = 4.4
 Identities = 16/43 (37%), Positives = 18/43 (41%), Gaps = 5/43 (11%)

Query: 86  HSVAAKFWPYPRFPVPGDRERLITCVDGHPRLISCGDGKLFDE 128
               AK     R PVP   ER +     H  L+ CG G L DE
Sbjct: 680 SEFFAKHGVMQRVPVPSPDERTL-----HLVLLGCGRGPLIDE 717



 Score = 27.0 bits (59), Expect = 5.1
 Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 6/37 (16%)

Query: 72  EAIVGFKCPDS------VDPHSVAAKFWPYPRFPVPG 102
           E +VGF+CP +      + PH VA +  P+ R   PG
Sbjct: 410 EEVVGFECPTASALLACLAPHGVAPQEHPHYRPDAPG 446


>gnl|CDD|146898 pfam04490, Pox_T4_C, Poxvirus T4 protein, C terminus.  This family
           of poxvirus proteins are thought to be retained in the
           endoplasmic reticulum. M-T4 of myxoma virus is thought
           to protect infected lymphocytes from apoptosis and
           modulate the inflammatory response to virus infection.
          Length = 149

 Score = 25.9 bits (57), Expect = 5.6
 Identities = 15/56 (26%), Positives = 21/56 (37%), Gaps = 3/56 (5%)

Query: 2   GLSISVIPFNNPPCEFKYGIYAESSACSTNYIKCEEGYPYLQPCEPGLAYDDRVHK 57
            LS +     N  CE K    +     +   IK      YL+ C  G  +D  V+K
Sbjct: 82  HLSSNYS-VRNE-CEKKLSSVSCKDKLTCGAIKGSTHNKYLKTCTNG-KFDRNVYK 134


>gnl|CDD|241338 cd13184, FERM_C_4_1_family, Protein 4.1 family FERM domain C-lobe. 
           The protein 4.1 family includes four well-defined
           members: erythroid protein 4.1 (4.1R), the bestknown and
           characterized member, 4.1G (general), 4.1N (neuronal),
           and 4.1 B (brain).  The less well understood 4.1O/FRMD3
           is not a true member of this family and is not included
           in this hierarchy. Besides three highly conserved
           domains, FERM, SAB (spectrin and actin binding domain)
           and CTD (C-terminal domain), the proteins from this
           family contain several unique domains: U1, U2 and U3.
           FERM domains like other members of the FERM domain
           superfamily have a cloverleaf architecture with three
           distinct lobes (FERM_N, FERM_M, FERM_C/N, alpha-, and
           C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3). The C-lobe/F3
           within the FERM domain is part of the PH domain family.
           The brain is a particularly rich source of protein 4.1
           isoforms. The various 4.1R, 4.1G, 4.1N, and 4.1B mRNAs
           are all expressed in distinct patterns within the brain.
           It is likely that 4.1 proteins play important functional
           roles in the brain including motor coordination and
           spatial learning, postmitotic differentiation, and
           synaptic architecture and function. In addition they are
           found in nonerythroid, nonneuronal cells where they may
           play a general structural role in nuclear architecture
           and/or may interact with splicing factors.  The FERM C
           domain is the third structural domain within the FERM
           domain. The FERM domain is found in the
           cytoskeletal-associated proteins such as ezrin, moesin,
           radixin, 4.1R, and merlin. These proteins provide a link
           between the membrane and cytoskeleton and are involved
           in signal transduction pathways. The FERM domain is also
           found in protein tyrosine phosphatases (PTPs) , the
           tyrosine kinases FAK and JAK, in addition to other
           proteins involved in signaling. This domain is
           structurally similar to the PH and PTB domains and
           consequently is capable of binding to both peptides and
           phospholipids at different sites.
          Length = 113

 Score = 24.9 bits (55), Expect = 9.7
 Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 20/61 (32%)

Query: 49  LAYDD--RVHKCNWPDELK--------------DIGCNSEAIVGFKCPDSVDPHSVAAKF 92
           L Y D  R+++  WP  LK                   SE  +GFK P+    H  A + 
Sbjct: 46  LVYRDRLRINRFAWPKILKISYKRNNFYIKLRPGEFEQSETTIGFKLPN----HRAAKRL 101

Query: 93  W 93
           W
Sbjct: 102 W 102


  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    0.142    0.481 

Gapped
Lambda     K      H
   0.267   0.0665    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,292,347
Number of extensions: 624117
Number of successful extensions: 350
Number of sequences better than 10.0: 1
Number of HSP's gapped: 350
Number of HSP's successfully gapped: 15
Length of query: 143
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 56
Effective length of database: 7,078,804
Effective search space: 396413024
Effective search space used: 396413024
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 (21.7 bits)
S2: 54 (24.7 bits)