Query psy13033
Match_columns 148
No_of_seqs 120 out of 1108
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 17:42:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13033.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13033hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3624|consensus 99.8 2.1E-18 4.7E-23 156.6 9.9 93 52-147 38-130 (687)
2 PF05649 Peptidase_M13_N: Pept 99.5 2.2E-15 4.8E-20 125.0 3.2 68 79-146 1-73 (390)
3 COG3590 PepO Predicted metallo 99.3 9.6E-13 2.1E-17 117.3 5.5 82 66-147 8-92 (654)
4 PF03002 Somatostatin: Somatos 38.2 12 0.00026 18.8 0.2 9 75-83 3-11 (18)
5 PHA03163 hypothetical protein; 27.8 1.8E+02 0.0039 20.5 4.8 41 69-116 27-67 (92)
6 PF03127 GAT: GAT domain; Int 25.6 2.3E+02 0.0049 19.5 5.6 33 113-145 19-52 (100)
7 PF11051 Mannosyl_trans3: Mann 17.5 1.1E+02 0.0024 24.9 2.5 50 13-63 91-142 (271)
8 PF10255 Paf67: RNA polymerase 12.3 2.6E+02 0.0057 24.8 3.5 29 66-94 247-275 (404)
9 PF07765 KIP1: KIP1-like prote 11.5 4.9E+02 0.011 17.6 3.9 54 90-145 3-68 (74)
10 PF09492 Pec_lyase: Pectic aci 11.1 1.5E+02 0.0032 25.1 1.5 40 84-123 75-115 (289)
No 1
>KOG3624|consensus
Probab=99.76 E-value=2.1e-18 Score=156.63 Aligned_cols=93 Identities=43% Similarity=0.763 Sum_probs=84.4
Q ss_pred CCCCCHHHHHHHHHhHHHHcCCCCCCCCCcHHHhhhcccccCCCCCCCchhhhHHHHHHHHHHHHHHHHHHhccCCCCCh
Q psy13033 52 EEQEDADTIRRNQAKLMKQYMDTSADPCVDFYQYACGNWGKLNPIPKDKAAFDTFEMLRESLDSVLRDLLEADISSDDCD 131 (148)
Q Consensus 52 ~~~~s~~Ci~~a~a~~l~s~md~svdPCdDFY~yvCG~W~k~~~ip~~~~~~~~f~~l~~~~~~~l~~ile~~~~~~~~s 131 (148)
..+.+++|+.+ |..|+++||.++|||+|||+||||+|.++++++... +++++..+...+...++++|+.......++
T Consensus 38 ~~~~~~~~~~~--a~~l~~~~d~svdPC~dFy~~ACG~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~L~~~~~~~~s~ 114 (687)
T KOG3624|consen 38 DVCESPECVTL--AHQLLNYMDTSVDPCEDFYQYACGNWAENHPIPKDK-RSSTLDELQDQVLRQLKELLEEPNSSSTSK 114 (687)
T ss_pred CccCCHHHHHH--HHHHHHcCCCCCCcchhHHHHHhCcHhhcCCCcccc-cccHHHHHHHHHHHHHHHHHhCCCCCCCCH
Confidence 34568999998 489999999999999999999999999999999877 899999999999999999999877655788
Q ss_pred HHHHHHHHHHHHHccC
Q psy13033 132 SYVKAKNLYSSCINHG 147 (148)
Q Consensus 132 ~~~Klk~fY~sCmd~~ 147 (148)
.+++++.||++|++.+
T Consensus 115 ~~~~~k~~Y~sC~~~~ 130 (687)
T KOG3624|consen 115 AERKAKRFYESCLDAK 130 (687)
T ss_pred HHHHHHHHHHHHhchh
Confidence 9999999999999854
No 2
>PF05649 Peptidase_M13_N: Peptidase family M13 This is family M13 in the peptidase classification. ; InterPro: IPR008753 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M13 (neprilysin family, clan MA(E)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. M13 peptidases are well-studied proteases found in a wide range of organisms including mammals and bacteria. In mammals they participate in processes such as cardiovascular development, blood-pressure regulation, nervous control of respiration, and regulation of the function of neuropeptides in the central nervous system. In bacteria they may be used for digestion of milk [, ]. The family includes eukaryotic and prokaryotic oligopeptidases, as well as some of the proteins responsible for the molecular basis of the blood group antigens e.g. Kell []. Neprilysin (3.4.24.11 from EC), is another member of this group, it is variously known as common acute lymphoblastic leukemia antigen (CALLA), enkephalinase (gp100) and neutral endopeptidase metalloendopeptidase (NEP). It is a plasma membrane-bound mammalian enzyme that is able to digest biologically-active peptides, including enkephalins []. The zinc ligands of neprilysin are known and are analogous to those in thermolysin, a related peptidase [, ]. Neprilysins, like thermolysin, are inhibited by phosphoramidon, which appears to selectively inhibit this family in mammals. The enzymes are all oligopeptidases, digesting oligo- and polypeptides, but not proteins []. Neprilysin consists of a short cytoplasmic domain, a membrane-spanning region and a large extracellular domain. The cytoplasmic domain contains a conformationally-restrained octapeptide, which is thought to act as a stop transfer sequence that prevents proteolysis and secretion [, ].; GO: 0008237 metallopeptidase activity, 0006508 proteolysis; PDB: 3DWB_A 3ZUK_A 2QPJ_A 1R1I_A 1R1J_A 1Y8J_A 1R1H_A 1DMT_A 2YB9_A.
Probab=99.55 E-value=2.2e-15 Score=125.03 Aligned_cols=68 Identities=46% Similarity=0.921 Sum_probs=54.8
Q ss_pred CCcHHHhhhcccccCCCCCCCchhhhHHHHHHHHHHHHHHHHHHhccCC-----CCChHHHHHHHHHHHHHcc
Q psy13033 79 CVDFYQYACGNWGKLNPIPKDKAAFDTFEMLRESLDSVLRDLLEADISS-----DDCDSYVKAKNLYSSCINH 146 (148)
Q Consensus 79 CdDFY~yvCG~W~k~~~ip~~~~~~~~f~~l~~~~~~~l~~ile~~~~~-----~~~s~~~Klk~fY~sCmd~ 146 (148)
|+|||+||||+|.++|+++.+...++.|..+++.+...++++|++.... ...+.++|++.||++|++.
T Consensus 1 CdDFY~yvCg~w~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~k~~~~Y~sC~~~ 73 (390)
T PF05649_consen 1 CDDFYQYVCGNWIKSHPIPSGQSSYSTFSDLQDNIDRQLKEILEKPSSSDTSPAEDSSAEQKAKALYDSCMDT 73 (390)
T ss_dssp TT-HHHHHHHHHHHH----TT-SEEEHHHHHHHHHHHHHHHHHSCCS--HCC-TTTTHHHHHHHHHHHHHH-H
T ss_pred CccHHHHHhCcHHhhCCCCcCcccccHHHHHHHHhhhhhhhhhcccccccccccCCChHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999887432 2578999999999999983
No 3
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=9.6e-13 Score=117.31 Aligned_cols=82 Identities=26% Similarity=0.472 Sum_probs=74.1
Q ss_pred hHHHHcCCCCCCCCCcHHHhhhcccccCCCCCCCchhhhHHHHHHHHHHHHHHHHHHhccCC---CCChHHHHHHHHHHH
Q psy13033 66 KLMKQYMDTSADPCVDFYQYACGNWGKLNPIPKDKAAFDTFEMLRESLDSVLRDLLEADISS---DDCDSYVKAKNLYSS 142 (148)
Q Consensus 66 ~~l~s~md~svdPCdDFY~yvCG~W~k~~~ip~~~~~~~~f~~l~~~~~~~l~~ile~~~~~---~~~s~~~Klk~fY~s 142 (148)
++.++.||..+.||+|||.||+|.|++.++||++++++|.|..|.++.+..++++++..... ......++++.||++
T Consensus 8 gfd~s~~d~~~rpqdDly~~vNG~Wl~~~~IPaDrsr~G~F~~L~d~~e~~~~~~i~~a~a~~~ap~~~~~~~~g~~y~~ 87 (654)
T COG3590 8 GFDLSHMDAMTRPQDDLYGYVNGEWLKTAEIPADRSRDGAFDKLDDRAEALVRDIIEAAAANEQAPEDAILQRIGKLYRS 87 (654)
T ss_pred CcChhcCCCcCCcchHHHHHhhhhhhhcCcCCCCccccccHHHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHH
Confidence 56789999999999999999999999999999999999999999999999999999887642 233688999999999
Q ss_pred HHccC
Q psy13033 143 CINHG 147 (148)
Q Consensus 143 Cmd~~ 147 (148)
.||++
T Consensus 88 ~mD~~ 92 (654)
T COG3590 88 FMDEA 92 (654)
T ss_pred hccHH
Confidence 99864
No 4
>PF03002 Somatostatin: Somatostatin/Cortistatin family; InterPro: IPR018142 Somatostatin inhibits the release of the pituitary growth hormone, somatotropin and inhibits the release of glucagon and insulin from the pancreas of fasted animals. Cortistatin is a cortical neuropeptide with neuronal depressant and sleep-modulating properties [].; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=38.22 E-value=12 Score=18.77 Aligned_cols=9 Identities=22% Similarity=0.800 Sum_probs=7.0
Q ss_pred CCCCCCcHH
Q psy13033 75 SADPCVDFY 83 (148)
Q Consensus 75 svdPCdDFY 83 (148)
...||.+||
T Consensus 3 ~k~~Cknff 11 (18)
T PF03002_consen 3 RKAGCKNFF 11 (18)
T ss_pred cccccccee
Confidence 357999997
No 5
>PHA03163 hypothetical protein; Provisional
Probab=27.75 E-value=1.8e+02 Score=20.53 Aligned_cols=41 Identities=20% Similarity=0.237 Sum_probs=25.4
Q ss_pred HHcCCCCCCCCCcHHHhhhcccccCCCCCCCchhhhHHHHHHHHHHHH
Q psy13033 69 KQYMDTSADPCVDFYQYACGNWGKLNPIPKDKAAFDTFEMLRESLDSV 116 (148)
Q Consensus 69 ~s~md~svdPCdDFY~yvCG~W~k~~~ip~~~~~~~~f~~l~~~~~~~ 116 (148)
-++-.+..++=++||.|.|.. +- -.+++.+|+.+-.-++-.
T Consensus 27 ~~~n~t~p~~~~~FYs~~C~A----Dt---Y~psL~SFSSIWaliNv~ 67 (92)
T PHA03163 27 CQNNSTTPHDFDMFHQYDCNA----DR---FAPQLLSFSSIWAILNVL 67 (92)
T ss_pred HhcCCCCCCCCcccccCCCCc----cc---ccchHHHHHHHHHHHHHH
Confidence 334445568888999999943 11 123577787766555443
No 6
>PF03127 GAT: GAT domain; InterPro: IPR004152 The GAT domain is responsible for binding of GGA proteins to several members of the ARF family including ARF1 [] and ARF3. The GAT domain stabilises membrane bound ARF1 in its GTP bound state, by interfering with GAP proteins [].; GO: 0006886 intracellular protein transport, 0005622 intracellular; PDB: 1YD8_H 1WR6_C 1WRD_A 1O3X_A 1J2J_B 1NWM_X 1X79_A 1OXZ_A 1NAF_A.
Probab=25.64 E-value=2.3e+02 Score=19.46 Aligned_cols=33 Identities=21% Similarity=0.370 Sum_probs=23.6
Q ss_pred HHHHHHHHHHhccCCCCChHH-HHHHHHHHHHHc
Q psy13033 113 LDSVLRDLLEADISSDDCDSY-VKAKNLYSSCIN 145 (148)
Q Consensus 113 ~~~~l~~ile~~~~~~~~s~~-~Klk~fY~sCmd 145 (148)
....+.++|....+....... ..+..+|.+|..
T Consensus 19 ~~~lL~emL~~~~~~~~~~~~~el~~eL~~~ck~ 52 (100)
T PF03127_consen 19 NAKLLNEMLDNYDPGEESSSDNELIQELYESCKS 52 (100)
T ss_dssp HHHHHHHHHHHTTTTTSTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCCCccchHHHHHHHHHHHH
Confidence 447788888877665444433 688899999964
No 7
>PF11051 Mannosyl_trans3: Mannosyltransferase putative; InterPro: IPR022751 Alpha-mannosyltransferase is responsible for the addition of residues to the outer chain of core N-linked polysaccharides and to O-linked mannotriose. It is implicated in late Golgi modifications [][][]. The proteins matching this entry are conserved in fungi and also found in some phototrophic organisms.; GO: 0006486 protein glycosylation
Probab=17.49 E-value=1.1e+02 Score=24.95 Aligned_cols=50 Identities=14% Similarity=0.331 Sum_probs=38.1
Q ss_pred CCceeEeecCCCcccccccccccCCCCCCCC--ccCCCcccCCCCCHHHHHHH
Q psy13033 13 SDNFVYLDTKNFSSINTDFLYDNFNSDRENN--VVKHPVFWEEQEDADTIRRN 63 (148)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~n~--~~~~~~~~~~~~s~~Ci~~a 63 (148)
=+.+++||..++.-.+-+.||++-. -..+- .+.-|.+|....++.|.+.+
T Consensus 91 FeevllLDaD~vpl~~p~~lF~~~~-yk~tG~lfw~dpd~~~~~~~~~~~~~~ 142 (271)
T PF11051_consen 91 FEEVLLLDADNVPLVDPEKLFESEE-YKKTGALFWRDPDFWKRSTSPFCYEIF 142 (271)
T ss_pred cceEEEEcCCcccccCHHHHhcCcc-ccccCEEEECCCccccccCChhHhHHh
Confidence 3678999999999999999999543 34444 33348888886689999874
No 8
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [].
Probab=12.32 E-value=2.6e+02 Score=24.76 Aligned_cols=29 Identities=10% Similarity=0.314 Sum_probs=20.6
Q ss_pred hHHHHcCCCCCCCCCcHHHhhhcccccCC
Q psy13033 66 KLMKQYMDTSADPCVDFYQYACGNWGKLN 94 (148)
Q Consensus 66 ~~l~s~md~svdPCdDFY~yvCG~W~k~~ 94 (148)
..+...-.-...--+++|.++|=+++...
T Consensus 247 ek~~kmq~gd~~~f~elF~~acPKFIsp~ 275 (404)
T PF10255_consen 247 EKMEKMQRGDEEAFEELFSFACPKFISPV 275 (404)
T ss_pred HHHHHHHccCHHHHHHHHHhhCCCccCCC
Confidence 33333333466778899999999999966
No 9
>PF07765 KIP1: KIP1-like protein; InterPro: IPR011684 This is a group of sequences found exclusively in plants. They are similar to kinase interacting protein 1 (KIP1), which has been found to interact with the kinase domain of PRK1, a receptor-like kinase []. This particular region contains two coiled-coils, which are described as motifs involved in protein-protein interactions []. It has also been suggested that the coiled-coils of the protein allow it to dimerise in vivo [].
Probab=11.54 E-value=4.9e+02 Score=17.62 Aligned_cols=54 Identities=19% Similarity=0.306 Sum_probs=29.4
Q ss_pred cccCCCCCCCchh--hhHHHHHHHHHHHHHHHHHHhcc-CC---------CCChHHHHHHHHHHHHHc
Q psy13033 90 WGKLNPIPKDKAA--FDTFEMLRESLDSVLRDLLEADI-SS---------DDCDSYVKAKNLYSSCIN 145 (148)
Q Consensus 90 W~k~~~ip~~~~~--~~~f~~l~~~~~~~l~~ile~~~-~~---------~~~s~~~Klk~fY~sCmd 145 (148)
|-.+|.-| .++. -++..++.+++...++ ++++.. +. +.+.....+..||++...
T Consensus 3 ww~sHi~~-~~skWL~~~l~dmd~kvk~mlk-lieedgdSfakrAEmyy~kRp~Li~~vee~yr~Yrs 68 (74)
T PF07765_consen 3 WWDSHISP-KQSKWLQENLSDMDEKVKAMLK-LIEEDGDSFAKRAEMYYKKRPELISLVEEFYRSYRS 68 (74)
T ss_pred hhhhcCCC-CCCHHHHHHHHHHHHHHHHHHH-HhccCcchHHHhhHHHhcccHHHHHHHHHHHHHHHH
Confidence 44455433 3333 3567777777777765 554321 10 123456677777777543
No 10
>PF09492 Pec_lyase: Pectic acid lyase; InterPro: IPR012669 Members of this family are isozymes of pectate lyase (4.2.2.2 from EC), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.; PDB: 1R76_A 1GXM_B 1GXN_A 1GXO_A.
Probab=11.09 E-value=1.5e+02 Score=25.11 Aligned_cols=40 Identities=28% Similarity=0.462 Sum_probs=19.8
Q ss_pred HhhhcccccCCCCCCCchhhhHH-HHHHHHHHHHHHHHHHh
Q psy13033 84 QYACGNWGKLNPIPKDKAAFDTF-EMLRESLDSVLRDLLEA 123 (148)
Q Consensus 84 ~yvCG~W~k~~~ip~~~~~~~~f-~~l~~~~~~~l~~ile~ 123 (148)
+|-+|+|....|...+....-+| +...-.+..+|+++.+.
T Consensus 75 QypnGGWPQ~yP~~~~Y~~~ITfNDdam~~vl~lL~~v~~~ 115 (289)
T PF09492_consen 75 QYPNGGWPQFYPLRGGYHDHITFNDDAMVNVLELLRDVAEG 115 (289)
T ss_dssp S-TTS--BSECS--SGGGGSEE-GGGHHHHHHHHHHHHHCT
T ss_pred hCCCCCCCccCCCCCCCCCceEEccHHHHHHHHHHHHHHhh
Confidence 47789999999877665543344 22334455555555443
Done!