RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13314
         (161 letters)



>gnl|CDD|200946 pfam00036, efhand, EF hand.  The EF-hands can be divided into two
          classes: signaling proteins and buffering/transport
          proteins. The first group is the largest and includes
          the most well-known members of the family such as
          calmodulin, troponin C and S100B. These proteins
          typically undergo a calcium-dependent conformational
          change which opens a target binding site. The latter
          group is represented by calbindin D9k and do not
          undergo calcium dependent conformational changes.
          Length = 29

 Score = 27.0 bits (61), Expect = 0.58
 Identities = 9/29 (31%), Positives = 17/29 (58%)

Query: 44 EFVRIWAEYDPNATGKIHYKEAVEMLRNI 72
          E    + E+D +  GKI ++E  E+L+ +
Sbjct: 1  ELKEAFKEFDKDGDGKISFEEFKELLKKL 29


>gnl|CDD|197492 smart00054, EFh, EF-hand, calcium binding motif.  EF-hands are
          calcium-binding motifs that occur at least in pairs.
          Links between disease states and genes encoding
          EF-hands, particularly the S100 subclass, are emerging.
          Each motif consists of a 12 residue loop flanked on
          either side by a 12 residue alpha-helix. EF-hands
          undergo a conformational change unpon binding calcium
          ions.
          Length = 29

 Score = 27.0 bits (61), Expect = 0.69
 Identities = 7/29 (24%), Positives = 16/29 (55%)

Query: 44 EFVRIWAEYDPNATGKIHYKEAVEMLRNI 72
          E    +  +D +  GKI ++E  ++L+ +
Sbjct: 1  ELKEAFRLFDKDGDGKIDFEEFKDLLKAL 29


>gnl|CDD|205524 pfam13344, Hydrolase_6, Haloacid dehalogenase-like hydrolase.  This
           family is part of the HAD superfamily.
          Length = 101

 Score = 28.2 bits (64), Expect = 0.72
 Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 5/63 (7%)

Query: 63  KEAVEMLRNIEPPLGF----GSKCPDRLAAKKLIRMNMPLDEDQSVQFTTTMFALIRENL 118
            EA+  LR    P+ F     S+  ++ A KKL ++   +DED+ +   T     ++E  
Sbjct: 20  AEALNALRAAGKPVVFVTNNSSRSREQYA-KKLRKLGFDVDEDEVITSATAAADYLKERK 78

Query: 119 SIK 121
             K
Sbjct: 79  FGK 81


>gnl|CDD|149284 pfam08144, CPL, CPL (NUC119) domain.  This C terminal domain is
          fund in Penguin-like proteins associated with Pumilio
          like repeats.
          Length = 148

 Score = 28.6 bits (64), Expect = 0.83
 Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 11/50 (22%)

Query: 32 RDSSILGAHHLDEFVRIWAEYDPNATGKIHYKEAV----EMLRNIEPPLG 77
          RD      H   E +R+  + D NA  K   K+      E+L  I PPL 
Sbjct: 17 RDP----THFHPEIIRLLKKGDGNAHSK---KDTELRRKELLEAISPPLL 59


>gnl|CDD|225028 COG2117, COG2117, Predicted subunit of
           tRNA(5-methylaminomethyl-2-thiouridylate)
           methyltransferase, contains the PP-loop ATPase domain
           [Translation, ribosomal structure and biogenesis].
          Length = 198

 Score = 28.5 bits (64), Expect = 1.1
 Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 3/56 (5%)

Query: 64  EAVEMLRNIE---PPLGFGSKCPDRLAAKKLIRMNMPLDEDQSVQFTTTMFALIRE 116
           +++E   N++   P LG G K   RL +   I    P ++ +   +   +  L+RE
Sbjct: 119 QSLEDRLNVQYIRPLLGLGYKTIRRLVSAIFILEEGPSEKIEKADYEAELRYLLRE 174


>gnl|CDD|178268 PLN02662, PLN02662, cinnamyl-alcohol dehydrogenase family protein.
          Length = 322

 Score = 27.8 bits (62), Expect = 2.4
 Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 7/38 (18%)

Query: 54  PNATGK-------IHYKEAVEMLRNIEPPLGFGSKCPD 84
           P+A+G+       +HY E V++L  + P L    KC D
Sbjct: 242 PSASGRYCLVERVVHYSEVVKILHELYPTLQLPEKCAD 279


>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain. 
          Length = 30

 Score = 24.9 bits (55), Expect = 3.3
 Identities = 7/29 (24%), Positives = 14/29 (48%)

Query: 44 EFVRIWAEYDPNATGKIHYKEAVEMLRNI 72
          E    +  +D +  G I  +E  + LR++
Sbjct: 1  ELREAFKLFDKDGDGYISAEELRKALRSL 29


>gnl|CDD|221541 pfam12348, CLASP_N, CLASP N terminal.  This region is found at the
           N terminal of CLIP-associated proteins (CLASPs). CLASPs
           are widely conserved microtubule plus-end-tracking
           proteins that regulate the stability of dynamic
           microtubules. In yeast, Drosophila, and Xenopus, a
           single CLASP orthologue is present. In mammals, a second
           paralogue (CLASP2) exists which has some functional
           overlap with CLASP1.
          Length = 228

 Score = 27.2 bits (61), Expect = 3.6
 Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 7/34 (20%)

Query: 131 ADEELRDTIRS-------IWPIESKKMLNLLLPN 157
           A+  +R+T RS       +WP  +K +L+ L PN
Sbjct: 189 ANPGVRETARSTFWEFFRVWPARAKSLLSSLDPN 222


>gnl|CDD|178347 PLN02746, PLN02746, hydroxymethylglutaryl-CoA lyase.
          Length = 347

 Score = 27.1 bits (60), Expect = 4.3
 Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 21/66 (31%)

Query: 6   GEALANIMLMLNLFVAVIMDNFDYLTRDSSI--LGAHHLDEFVRIWAEYDPNATGKIHYK 63
           G+ALANI++ L + ++ +         DSS+  LG             Y   A+G +  +
Sbjct: 253 GQALANILVSLQMGISTV---------DSSVAGLGG----------CPYAKGASGNVATE 293

Query: 64  EAVEML 69
           + V ML
Sbjct: 294 DVVYML 299


>gnl|CDD|151971 pfam11534, HTHP, Hexameric tyrosine-coordinated heme protein
           (HTHP).  HTHP is from the marine bacterium Silicibacter
           pomeroyi and has peroxidase and catalase activity. HTHP
           consists of six monomers which each binds a solvent
           accessible heme group and is stabilised by the
           interaction of three neighboring monomers. The heme iron
           is penta-coordinated with a tyrosine residue as proximal
           ligand.
          Length = 75

 Score = 25.5 bits (56), Expect = 5.1
 Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 1/27 (3%)

Query: 118 LSIKM-RCADEMDQADEELRDTIRSIW 143
           L++KM R A +  Q D E+R  +R ++
Sbjct: 20  LAVKMARVAVKTTQPDAEVRFALRPVY 46


>gnl|CDD|99726 cd06405, PB1_Mekk2_3, The PB1 domain is present in the two
           mitogen-activated protein kinase kinases MEKK2 and MEKK3
           which are two members of the signaling kinase cascade
           involved in angiogenesis and early cardiovascular
           development. The PB1 domain of MEKK2 (and/or MEKK3)
           interacts with the PB1 domain of another member of the
           kinase cascade Map2k5.  A canonical PB1-PB1 interaction,
           which involves heterodimerization of two PB1 domains, is
           required for the formation of macromolecular signaling
           complexes ensuring specificity and fidelity during
           cellular signaling. The interaction between two PB1
           domain depends on the type of PB1. There are three types
           of PB1 domains: type I which contains an OPCA motif,
           acidic aminoacid cluster, type II which contains a basic
           cluster, and type I/II which contains both an OPCA motif
           and a basic cluster.  Interactions of PB1 domains with
           other protein domains have been described as
           noncanonical PB1-interactions. The PB1 domain module is
           conserved in amoebas, fungi, animals, and plants. The
           MEKK2 and MEKK3 proteins contain a type II PB1 domain.
          Length = 79

 Score = 25.4 bits (56), Expect = 5.3
 Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 13/73 (17%)

Query: 89  KKLIRMNMPLDEDQSVQFTTTMFA------LIRENLSIKMRCADEMDQADEELRDTIRSI 142
           K++I+   P+      Q  TT F            L I ++  +++D+A E L  +    
Sbjct: 11  KRIIQFPRPVKFKDLQQKVTTAFGQPMDLHYTNNELLIPLKNQEDLDRAIELLDRSP--- 67

Query: 143 WPIESKKMLNLLL 155
                 K L +LL
Sbjct: 68  ----HMKSLRILL 76


>gnl|CDD|219699 pfam08016, PKD_channel, Polycystin cation channel.  This family
           contains the cation channel region of PKD1 and PKD2
           proteins.
          Length = 423

 Score = 26.1 bits (58), Expect = 8.9
 Identities = 8/17 (47%), Positives = 14/17 (82%)

Query: 12  IMLMLNLFVAVIMDNFD 28
           I ++LNLF+A+I D++ 
Sbjct: 405 IFILLNLFLAIINDSYV 421


>gnl|CDD|216369 pfam01214, CK_II_beta, Casein kinase II regulatory subunit. 
          Length = 183

 Score = 26.0 bits (58), Expect = 9.2
 Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 7/38 (18%)

Query: 45 FVRIWAEY--DP-NATG---KI-HYKEAVEMLRNIEPP 75
          F  +  +Y  D  N  G   ++ +YKEA++++ + EP 
Sbjct: 15 FCEVDEDYIEDDFNLYGLSEEVPNYKEALDLILDKEPE 52


  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
   0.321    0.135    0.395 

Gapped
Lambda     K      H
   0.267   0.0908    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,357,202
Number of extensions: 769173
Number of successful extensions: 683
Number of sequences better than 10.0: 1
Number of HSP's gapped: 683
Number of HSP's successfully gapped: 26
Length of query: 161
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 72
Effective length of database: 6,990,096
Effective search space: 503286912
Effective search space used: 503286912
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: 55 (24.6 bits)