Query 039568
Match_columns 74
No_of_seqs 91 out of 93
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 10:57:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039568.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039568hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1021 Acetylglucosaminyltran 99.5 2.4E-14 5.2E-19 111.8 3.0 65 1-66 392-459 (464)
2 KOG0476 Cl- channel CLC-2 and 70.1 2.9 6.4E-05 36.8 1.8 27 6-32 168-194 (931)
3 PF06972 DUF1296: Protein of u 45.7 34 0.00073 21.1 3.0 41 8-55 9-52 (60)
4 cd03572 ENTH_epsin_related ENT 30.0 1.4E+02 0.0029 20.2 4.4 48 11-60 62-111 (122)
5 cd08324 CARD_NOD1_CARD4 Caspas 25.6 1.4E+02 0.0029 19.5 3.6 51 9-60 19-75 (85)
6 PF12949 HeH: HeH/LEM domain; 25.2 36 0.00078 18.5 0.7 11 7-17 5-15 (35)
7 PF02946 GTF2I: GTF2I-like rep 25.0 32 0.00069 21.9 0.5 13 6-18 54-66 (76)
8 PHA03108 poly(A) polymerase sm 24.4 42 0.00091 26.4 1.2 21 34-54 242-264 (300)
9 PF09851 SHOCT: Short C-termin 23.8 58 0.0012 16.8 1.3 25 7-31 4-30 (31)
10 KOG3695 Uncharacterized conser 23.6 46 0.00099 29.4 1.4 24 35-58 175-198 (825)
11 COG3028 Uncharacterized protei 22.5 1.2E+02 0.0025 22.5 3.2 49 10-60 133-181 (187)
12 PF10540 Membr_traf_MHD: Munc1 22.3 71 0.0015 21.4 1.9 13 49-61 25-37 (137)
13 KOG3672 Histidine acid phospha 22.1 60 0.0013 27.0 1.7 44 11-55 258-302 (487)
14 PF14800 DUF4481: Domain of un 21.8 82 0.0018 24.9 2.4 45 18-62 36-81 (308)
15 TIGR00552 nadE NAD+ synthetase 21.2 92 0.002 22.3 2.4 41 8-52 202-248 (250)
16 TIGR02625 YiiL_rotase L-rhamno 20.1 91 0.002 20.3 2.0 19 20-39 13-31 (102)
No 1
>KOG1021 consensus Acetylglucosaminyltransferase EXT1/exostosin 1 [Carbohydrate transport and metabolism; Cell wall/membrane/envelope biogenesis; Extracellular structures]
Probab=99.46 E-value=2.4e-14 Score=111.80 Aligned_cols=65 Identities=26% Similarity=0.329 Sum_probs=61.6
Q ss_pred CcccccCcccH-HHHhhhhchhHHHHHHHhcCchhhhhhhcccC--CCCCchHHHHHHHHHHhhccccc
Q 039568 1 LTVAEKDVATL-GPILDHVAATNLSIIQKNLWDPDVRRALLFND--RVEEGDATWQVIRALSQKLDRSY 66 (74)
Q Consensus 1 V~V~e~DVp~L-k~IL~~i~~~~y~~~Qr~l~~~~vrrhf~~n~--p~~~yDafHmVL~sLw~kl~~~~ 66 (74)
|+|+|+||+++ ++||.+|+.++|++||+++.+ .++|||+|+. |++++|||||+++++|.++.+-.
T Consensus 392 V~v~~~~v~~~~~~iL~~i~~~~~~~m~~~v~~-~v~r~~~~~~~~~~~~~da~~~~~~~v~~r~~~~~ 459 (464)
T KOG1021|consen 392 VFVPEKDVPELIKNILLSIPEEEVLRMRENVIR-LVPRHFLKKPPGPPKRGDAFHMILHSLWRRLHKLR 459 (464)
T ss_pred EEEEHHHhhhHHHHHHHhcCHHHHHHHHHHHHH-HHHhhEEeCCCCCCCcchhHHHHHhhhhhcccccc
Confidence 57899999999 999999999999999999997 7999999998 99999999999999999998754
No 2
>KOG0476 consensus Cl- channel CLC-2 and related proteins (CLC superfamily) [Inorganic ion transport and metabolism]
Probab=70.05 E-value=2.9 Score=36.79 Aligned_cols=27 Identities=11% Similarity=0.143 Sum_probs=25.1
Q ss_pred cCcccHHHHhhhhchhHHHHHHHhcCc
Q 039568 6 KDVATLGPILDHVAATNLSIIQKNLWD 32 (74)
Q Consensus 6 ~DVp~Lk~IL~~i~~~~y~~~Qr~l~~ 32 (74)
+.||++|+||.++-.++|+.+...+.+
T Consensus 168 SGIPEmKtIlrGv~LkeYLt~KtlvAK 194 (931)
T KOG0476|consen 168 SGIPEMKTILRGVILKEYLTLKTLVAK 194 (931)
T ss_pred CCChhHHHHHHhhhHHhhhhHHHHHHH
Confidence 789999999999999999999988873
No 3
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=45.69 E-value=34 Score=21.08 Aligned_cols=41 Identities=22% Similarity=0.296 Sum_probs=28.8
Q ss_pred cccHHHHhhh-hchhHHHHHHHhcCch--hhhhhhcccCCCCCchHHHHHH
Q 039568 8 VATLGPILDH-VAATNLSIIQKNLWDP--DVRRALLFNDRVEEGDATWQVI 55 (74)
Q Consensus 8 Vp~Lk~IL~~-i~~~~y~~~Qr~l~~~--~vrrhf~~n~p~~~yDafHmVL 55 (74)
|-.||+|... --++-|.+++..-+|| .++|-+- -|.||.|=
T Consensus 9 VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~-------qD~FheVk 52 (60)
T PF06972_consen 9 VQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLS-------QDPFHEVK 52 (60)
T ss_pred HHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHh-------cCcHHHHH
Confidence 5578888887 4477789999998887 4454332 27788763
No 4
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=30.05 E-value=1.4e+02 Score=20.19 Aligned_cols=48 Identities=15% Similarity=0.209 Sum_probs=36.3
Q ss_pred HHHHhhhhchhHHHHHHHhcCchhhhhhhcccCCCC--CchHHHHHHHHHHh
Q 039568 11 LGPILDHVAATNLSIIQKNLWDPDVRRALLFNDRVE--EGDATWQVIRALSQ 60 (74)
Q Consensus 11 Lk~IL~~i~~~~y~~~Qr~l~~~~vrrhf~~n~p~~--~yDafHmVL~sLw~ 60 (74)
||.++..-+.+=...+|+|.. .+|....|.-||- .||+-++.+..-.+
T Consensus 62 lk~l~~~G~~~f~~~~~~~~~--~Ik~~~~f~g~~Dp~~Gd~~~~~VR~~A~ 111 (122)
T cd03572 62 IKHLCEKGNSDFKRELQRNSA--QIRECANYKGPPDPLKGDSLNEKVREEAQ 111 (122)
T ss_pred HHHHHhhCCHHHHHHHHHhHH--HHHHHHHcCCCCCcccCcchhHHHHHHHH
Confidence 344444455666778999986 7999999999877 69999998876554
No 5
>cd08324 CARD_NOD1_CARD4 Caspase activation and recruitment domain similar to that found in NOD1. Caspase activation and recruitment domain (CARD) found in human NOD1 (CARD4) and similar proteins. NOD1 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD1, as well as NOD2, the N-terminal effector domain is a CARD. Nod1-CARD has been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form hom
Probab=25.58 E-value=1.4e+02 Score=19.52 Aligned_cols=51 Identities=14% Similarity=0.227 Sum_probs=37.0
Q ss_pred ccHHHHhhh--hchhHHHHHHHhcCch-hhhhhhcccCCCC---CchHHHHHHHHHHh
Q 039568 9 ATLGPILDH--VAATNLSIIQKNLWDP-DVRRALLFNDRVE---EGDATWQVIRALSQ 60 (74)
Q Consensus 9 p~Lk~IL~~--i~~~~y~~~Qr~l~~~-~vrrhf~~n~p~~---~yDafHmVL~sLw~ 60 (74)
|-|+..+.+ |+.++|...+++--.+ +||+-+-+ -++. -.|.|-.||.++..
T Consensus 19 plLD~Ll~n~~it~E~y~~V~a~~T~qdkmRkLld~-v~akG~~~k~~F~~iL~e~~~ 75 (85)
T cd08324 19 CLVDNLLKNDYFSTEDAEIVCACPTQPDKVRKILDL-VQSKGEEVSEYFLYLLQQLAD 75 (85)
T ss_pred HHHHHHhccCCccHHHHHHHHhCCCCHHHHHHHHHH-HHhcCchHHHHHHHHHHHHHH
Confidence 445666666 8899999999876543 78888887 3443 34689999988764
No 6
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=25.18 E-value=36 Score=18.52 Aligned_cols=11 Identities=55% Similarity=0.634 Sum_probs=8.5
Q ss_pred CcccHHHHhhh
Q 039568 7 DVATLGPILDH 17 (74)
Q Consensus 7 DVp~Lk~IL~~ 17 (74)
-|++||+||..
T Consensus 5 tV~~Lk~iL~~ 15 (35)
T PF12949_consen 5 TVAQLKRILDE 15 (35)
T ss_dssp -SHHHHHHHHH
T ss_pred cHHHHHHHHHH
Confidence 57899999875
No 7
>PF02946 GTF2I: GTF2I-like repeat; InterPro: IPR004212 This region of sequence similarity is found up to six times in a variety of proteins including general transcription factor II-I (GTF2I). It has been suggested that this may be a DNA binding domain [, ].; PDB: 2E3L_A 2D99_A 2DN4_A 2D9B_A 2EJE_A 1Q60_A 2DZR_A 2DN5_A 2DZQ_A 2ED2_A.
Probab=24.97 E-value=32 Score=21.95 Aligned_cols=13 Identities=23% Similarity=0.327 Sum_probs=9.9
Q ss_pred cCcccHHHHhhhh
Q 039568 6 KDVATLGPILDHV 18 (74)
Q Consensus 6 ~DVp~Lk~IL~~i 18 (74)
=|++.|++||++=
T Consensus 54 Y~i~~L~~IL~~~ 66 (76)
T PF02946_consen 54 YGIPRLEKILEAS 66 (76)
T ss_dssp S-HHHHHHHHHTT
T ss_pred CCHHHHHHHHHcc
Confidence 4889999999863
No 8
>PHA03108 poly(A) polymerase small subunit; Provisional
Probab=24.37 E-value=42 Score=26.38 Aligned_cols=21 Identities=19% Similarity=0.093 Sum_probs=15.6
Q ss_pred hhhhhhcc--cCCCCCchHHHHH
Q 039568 34 DVRRALLF--NDRVEEGDATWQV 54 (74)
Q Consensus 34 ~vrrhf~~--n~p~~~yDafHmV 54 (74)
.+|+-.+. .=|-|+||-|||-
T Consensus 242 ~~R~~~v~~fdy~nq~yd~fhm~ 264 (300)
T PHA03108 242 IVRNKIVLNFDYPNQEYDFFHMY 264 (300)
T ss_pred hhheeEEEeccCCCccchHHHHH
Confidence 46665554 4599999999993
No 9
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=23.81 E-value=58 Score=16.79 Aligned_cols=25 Identities=12% Similarity=0.242 Sum_probs=18.2
Q ss_pred CcccHHHHhhh--hchhHHHHHHHhcC
Q 039568 7 DVATLGPILDH--VAATNLSIIQKNLW 31 (74)
Q Consensus 7 DVp~Lk~IL~~--i~~~~y~~~Qr~l~ 31 (74)
.+-.|++.+.+ |+.++|..+.+.+.
T Consensus 4 ~L~~L~~l~~~G~IseeEy~~~k~~ll 30 (31)
T PF09851_consen 4 RLEKLKELYDKGEISEEEYEQKKARLL 30 (31)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence 34566776665 88999998887663
No 10
>KOG3695 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.63 E-value=46 Score=29.41 Aligned_cols=24 Identities=21% Similarity=0.235 Sum_probs=21.1
Q ss_pred hhhhhcccCCCCCchHHHHHHHHH
Q 039568 35 VRRALLFNDRVEEGDATWQVIRAL 58 (74)
Q Consensus 35 vrrhf~~n~p~~~yDafHmVL~sL 58 (74)
-=.+|.||.||+++|+-|.++.++
T Consensus 175 ~Ll~FF~h~p~k~~a~~~~l~fsl 198 (825)
T KOG3695|consen 175 SLLEFFFHAPPKSGAANQFLIFSL 198 (825)
T ss_pred HHHHHHhcCCccccccchHHHHhh
Confidence 446899999999999999998876
No 11
>COG3028 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.50 E-value=1.2e+02 Score=22.45 Aligned_cols=49 Identities=10% Similarity=0.179 Sum_probs=41.6
Q ss_pred cHHHHhhhhchhHHHHHHHhcCchhhhhhhcccCCCCCchHHHHHHHHHHh
Q 039568 10 TLGPILDHVAATNLSIIQKNLWDPDVRRALLFNDRVEEGDATWQVIRALSQ 60 (74)
Q Consensus 10 ~Lk~IL~~i~~~~y~~~Qr~l~~~~vrrhf~~n~p~~~yDafHmVL~sLw~ 60 (74)
-|..+|...|....-.++..+.+ .++--.-|.||+-|=...+.|+++-.
T Consensus 133 Alt~~l~~~P~aDrq~LR~LvRn--a~kE~a~NKPPks~ReifQ~lk~l~~ 181 (187)
T COG3028 133 ALTEFLNQYPDADRQQLRTLIRN--AKKEQAQNKPPKSFREIFQYLKELME 181 (187)
T ss_pred HHHHHHHHCCcccHHHHHHHHHH--HHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence 46778888888888888888875 88888999999999999999998754
No 12
>PF10540 Membr_traf_MHD: Munc13 (mammalian uncoordinated) homology domain; InterPro: IPR019558 Mammalian uncoordinated homology 13 (Munc13) proteins constitute a family of three highly homologous molecules (Munc13-1, Munc13-2 and Munc13-3) with homology to Caenorhabditis elegans unc-13p. Munc13 proteins contain a phorbol ester-binding C1 domain and two C2 domains, which are Ca2+/phospholipid binding domains. Sequence analyses have uncovered two regions called Munc13 homology domains 1 (MHD1) and 2 (MHD2) that are arranged between two flanking C2 domains. MHD1 and MHD2 domains are present in a wide variety of proteins from Arabidopsis thaliana (Mouse-ear cress), C. elegans, Drosophila melanogaster (Fruit fly), Mus musculus (Mouse), Rattus norvegicus (Rat) and Homo sapiens (Human), some of which may function in a Munc13-like manner to regulate membrane trafficking. The MHD1 and MHD2 domains are predicted to be alpha-helical. ; PDB: 3SWH_A.
Probab=22.26 E-value=71 Score=21.42 Aligned_cols=13 Identities=15% Similarity=0.197 Sum_probs=10.9
Q ss_pred hHHHHHHHHHHhh
Q 039568 49 DATWQVIRALSQK 61 (74)
Q Consensus 49 DafHmVL~sLw~k 61 (74)
+.|+.||.++|.-
T Consensus 25 ~~f~~vl~~lW~~ 37 (137)
T PF10540_consen 25 ENFKRVLKELWKV 37 (137)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 6899999999964
No 13
>KOG3672 consensus Histidine acid phosphatase [General function prediction only]
Probab=22.13 E-value=60 Score=26.98 Aligned_cols=44 Identities=9% Similarity=0.095 Sum_probs=28.7
Q ss_pred HHHHhhhhchhHHHHHH-HhcCchhhhhhhcccCCCCCchHHHHHH
Q 039568 11 LGPILDHVAATNLSIIQ-KNLWDPDVRRALLFNDRVEEGDATWQVI 55 (74)
Q Consensus 11 Lk~IL~~i~~~~y~~~Q-r~l~~~~vrrhf~~n~p~~~yDafHmVL 55 (74)
+.+|++.--...+++|- -.++ ........|++|+.-.|+|-||=
T Consensus 258 ~r~~~e~~~~~q~lk~~~~dv~-~~~~~~~~~~~p~~~~~pf~~ID 302 (487)
T KOG3672|consen 258 IRRIYEEEHLQQFLKMKSDDVA-DEEKKFLSFPQPAASFDPFQMID 302 (487)
T ss_pred HHHHHHHHHHHHHHhcchHHHH-hhhcceeeecccccccCchhHHH
Confidence 34444444444444444 2233 25678899999999999999973
No 14
>PF14800 DUF4481: Domain of unknown function (DUF4481)
Probab=21.80 E-value=82 Score=24.87 Aligned_cols=45 Identities=24% Similarity=0.258 Sum_probs=32.0
Q ss_pred hchhHHHH-HHHhcCchhhhhhhcccCCCCCchHHHHHHHHHHhhc
Q 039568 18 VAATNLSI-IQKNLWDPDVRRALLFNDRVEEGDATWQVIRALSQKL 62 (74)
Q Consensus 18 i~~~~y~~-~Qr~l~~~~vrrhf~~n~p~~~yDafHmVL~sLw~kl 62 (74)
+|.++|.. |...|-+|+|||-.+||.-+...=..+-+-=.||-.+
T Consensus 36 lp~e~y~~~~E~al~~p~VRRy~~yNs~~fr~~~a~I~yivlw~~l 81 (308)
T PF14800_consen 36 LPVEDYVHLMESALLDPQVRRYTLYNSRYFRLLVAVIFYIVLWANL 81 (308)
T ss_pred ccHHHHHHHHHHhccchhheeeeeecchHHHHHHHHHHHHHHHHHH
Confidence 78889876 5566777899999999998876655444434455443
No 15
>TIGR00552 nadE NAD+ synthetase. NAD+ synthetase is a nearly ubiquitous enzyme for the final step in the biosynthesis of the essensial cofactor NAD. The member of this family from Bacillus subtilis is a strictly NH(3)-dependent NAD(+) synthetase of 272 amino acids. Proteins consisting only of the domain modeled here may be named as NH3-dependent NAD+ synthetase. Amidotransferase activity may reside in a separate protein, or not be present. Some other members of the family, such as from Mycobacterium tuberculosis, are considerably longer, contain an apparent amidotransferase domain, and show glutamine-dependent as well as NH(3)-dependent activity.
Probab=21.24 E-value=92 Score=22.31 Aligned_cols=41 Identities=12% Similarity=0.050 Sum_probs=25.8
Q ss_pred cccHHHHhhhh------chhHHHHHHHhcCchhhhhhhcccCCCCCchHHH
Q 039568 8 VATLGPILDHV------AATNLSIIQKNLWDPDVRRALLFNDRVEEGDATW 52 (74)
Q Consensus 8 Vp~Lk~IL~~i------~~~~y~~~Qr~l~~~~vrrhf~~n~p~~~yDafH 52 (74)
...|+.||..+ +.+...++.+.. .+-++-.+-||..+|+||
T Consensus 202 y~~~D~~l~~~~~~~~~~~~~~~~i~~~~----~~~~~kr~~~~~~~~~~~ 248 (250)
T TIGR00552 202 YDELDDYLKGIEELSQTVQEVVKRIESLV----QKSEHKRRLPATIFDLFW 248 (250)
T ss_pred HHHHHHHHHHHhhcCCCHHHHHHHHHHHH----HHHHhcccCCCCchhhcc
Confidence 35678888552 233444555544 344555678999999997
No 16
>TIGR02625 YiiL_rotase L-rhamnose 1-epimerase. Members of this protein family are rhamnose mutarotase from Escherichia coli, previously designated YiiL as an uncharacterized protein, and close homologs also associated with rhamnose dissimilation operons in other bacterial genomes. Mutarotase is a term for an epimerase that changes optical activity. This enzyme was shown experimentally to interconvert alpha and beta stereoisomers of the pyranose form of L-rhamnose. The crystal structure of this small (104 amino acid) protein shows a locally asymmetric dimer with active site residues of His, Tyr, and Trp.
Probab=20.14 E-value=91 Score=20.28 Aligned_cols=19 Identities=16% Similarity=0.613 Sum_probs=15.7
Q ss_pred hhHHHHHHHhcCchhhhhhh
Q 039568 20 ATNLSIIQKNLWDPDVRRAL 39 (74)
Q Consensus 20 ~~~y~~~Qr~l~~~~vrrhf 39 (74)
.++|.+.++++| |++.+++
T Consensus 13 ~~eY~~~H~~vW-PEv~~~L 31 (102)
T TIGR02625 13 HEEYQKRHNEIW-PELKEVL 31 (102)
T ss_pred HHHHHHHHHccC-HHHHHHH
Confidence 578999999999 7887663
Done!