Query psy6842
Match_columns 189
No_of_seqs 68 out of 70
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 19:49:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6842.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6842hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2350|consensus 100.0 2.6E-41 5.5E-46 286.8 4.1 127 35-161 9-183 (221)
2 PF09733 VEFS-Box: VEFS-Box of 100.0 1.5E-38 3.2E-43 254.7 4.7 101 63-163 6-108 (140)
3 KOG2350|consensus 98.8 1.8E-09 4E-14 92.9 3.4 83 78-160 63-163 (221)
4 PF09733 VEFS-Box: VEFS-Box of 98.6 3.9E-08 8.6E-13 79.3 3.2 60 101-160 18-86 (140)
5 PF10488 PP1c_bdg: Phosphatase 45.4 12 0.00026 34.6 1.5 34 97-134 38-71 (307)
6 PHA03389 polh polyhedrin; Prov 37.5 40 0.00086 30.3 3.4 36 123-158 92-142 (246)
7 PHA03388 ORF1_granulin Granuli 35.0 47 0.001 29.8 3.5 36 123-158 94-144 (248)
8 KOG3151|consensus 34.5 20 0.00042 32.6 1.1 33 2-34 138-170 (260)
9 PF14784 ECIST_Cterm: C-termin 34.0 27 0.00059 28.2 1.7 33 68-100 16-55 (126)
10 PF05299 Peptidase_M61: M61 gl 24.6 43 0.00094 26.7 1.4 33 78-110 12-47 (122)
No 1
>KOG2350|consensus
Probab=100.00 E-value=2.6e-41 Score=286.81 Aligned_cols=127 Identities=29% Similarity=0.407 Sum_probs=110.2
Q ss_pred hhhcccCCccCcCccccccccccccCcC------cCCCCCCcc-------------------------------------
Q psy6842 35 KSFELHGANEQSKGIMTDLKLNDMADDA------DTDGHRPVV------------------------------------- 71 (189)
Q Consensus 35 ~~~~~~g~~~~~kGa~idvSlnE~~D~~------d~~~qr~y~------------------------------------- 71 (189)
+|+--+-++-||+||++++|+|||||++ +++.|++++
T Consensus 9 hs~~~~~~~~hp~~a~~~~~~~~~~d~~~~g~p~~~~~~pg~s~~~~~~~~~~p~t~i~~~~p~~~att~k~~aersd~~ 88 (221)
T KOG2350|consen 9 HSRFIFNYVYHPKGARIDVSINECYDGSYAGNPQDIHRQPGFAFSRNGPVKRTPITHILVCRPKRTATTMKEFAERSDGE 88 (221)
T ss_pred hhheeeeeecccccccccCCCCCcccccccCCcccccCCCCCCcccCCCCCCCcchhhhccchHhhhhcccccccccccc
Confidence 3444555678999999999999999998 233343333
Q ss_pred ----cCCCcceeecccceecCCCCCCCCCCCCCC-hhhhchhhhhhhhcccCCCchhhHHHHHHhhhHhhhccccchHHH
Q psy6842 72 ----SGHNRLYHHTITCLPVLPKEMDQDSDDQKD-PKWLQTKTKMMIDEFTDVNEGEKELMKLWNLHVMKYGWGREKELM 146 (189)
Q Consensus 72 ----~ghnR~yfHs~tcqPlr~kE~D~DSEdE~D-p~wl~~eT~~mLdEF~DVSe~EKe~MklWNsfV~k~~~iADkqIp 146 (189)
.+|+||||||+|||||+++++..|+|+|.| |+|++.++++||++|+||||+||++|||||+||++|+++||+|||
T Consensus 89 v~~l~lhkRqffHS~t~qPl~leqvmsdrdsE~d~dd~a~~e~~~mLe~fvdvne~ekr~mkLWNsfVrkqrviAD~hip 168 (221)
T KOG2350|consen 89 VEQLRLHKRQFFHSDTCQPLRLEQVMSDRDSEKDEDDWARLETSTMLEEFVDVNEGEKRVMKLWNSFVRKQRVIADGHIP 168 (221)
T ss_pred eeeeccccceeeeccccCCCCHHHHhccccccccchhhhhhHHHHHHHHhccccHHHHHHHHHHHHHHHHhheeccCCCc
Confidence 599999999999999999998555555544 999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcceee
Q psy6842 147 KLWNLHVMKYGYIVW 161 (189)
Q Consensus 147 kacnlFvm~hG~ia~ 161 (189)
|||++|++.||++++
T Consensus 169 wACeaFsrlhgq~m~ 183 (221)
T KOG2350|consen 169 WACEAFSRLHGQKMI 183 (221)
T ss_pred HHHHHHHHHhHHHHH
Confidence 999999999999765
No 2
>PF09733 VEFS-Box: VEFS-Box of polycomb protein; InterPro: IPR019135 The VEFS-Box is found in the the C-terminal region of the VRN2, EMF2, FIS2, and Su(z)12 polycomb proteins. This domain is characterised by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain []. In some proteins the VEFS-Box is associated with a zinc-finger domain located roughly 100 residues towards the N terminus. These proteins are part of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression [].
Probab=100.00 E-value=1.5e-38 Score=254.68 Aligned_cols=101 Identities=40% Similarity=0.638 Sum_probs=97.2
Q ss_pred cCCCCCCcccCCCcceeecccceecCCCCC--CCCCCCCCChhhhchhhhhhhhcccCCCchhhHHHHHHhhhHhhhccc
Q psy6842 63 DTDGHRPVVSGHNRLYHHTITCLPVLPKEM--DQDSDDQKDPKWLQTKTKMMIDEFTDVNEGEKELMKLWNLHVMKYGWG 140 (189)
Q Consensus 63 d~~~qr~y~~ghnR~yfHs~tcqPlr~kE~--D~DSEdE~Dp~wl~~eT~~mLdEF~DVSe~EKe~MklWNsfV~k~~~i 140 (189)
+.+.+|+|++||||+||||+||+||+++|+ |+|||||+|++|++.+++++|+||+|||++||++|++||+||++++++
T Consensus 6 ~~~~~r~~~~~~~R~y~Hs~t~~p~~~~e~~sd~DSedE~D~~wl~~~~r~~l~dF~Dv~~~EKefM~lWN~fv~k~r~~ 85 (140)
T PF09733_consen 6 ERSDQRPYILLHNRQYFHSRTCQPMRPEEVLSDRDSEDEVDDEWLDQKHRRMLDDFSDVNEEEKEFMKLWNSFVMKQRVI 85 (140)
T ss_pred hhhcchhHhhccCcceeccccceeccHHHhcCCCCCCCcCCHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHccCc
Confidence 367899999999999999999999999999 999999999999999999999999999999999999999999999999
Q ss_pred cchHHHHHHHHHHHhhcceeeec
Q psy6842 141 REKELMKLWNLHVMKYGYIVWLG 163 (189)
Q Consensus 141 ADkqIpkacnlFvm~hG~ia~~~ 163 (189)
||++||+||++||..||..+...
T Consensus 86 aD~~ip~ac~~Fv~~~~~~L~~~ 108 (140)
T PF09733_consen 86 ADGHIPWACEAFVREHGQWLVEK 108 (140)
T ss_pred chHHHHHHHHHHHHHhHHHHhhC
Confidence 99999999999999999877654
No 3
>KOG2350|consensus
Probab=98.84 E-value=1.8e-09 Score=92.89 Aligned_cols=83 Identities=24% Similarity=0.356 Sum_probs=66.3
Q ss_pred eeecccceecCCC----CCCCCCCCCC------Chhhhchhhhhhhh--cccCCCchhh---HHHHHHhhhHhhh---cc
Q psy6842 78 YHHTITCLPVLPK----EMDQDSDDQK------DPKWLQTKTKMMID--EFTDVNEGEK---ELMKLWNLHVMKY---GW 139 (189)
Q Consensus 78 yfHs~tcqPlr~k----E~D~DSEdE~------Dp~wl~~eT~~mLd--EF~DVSe~EK---e~MklWNsfV~k~---~~ 139 (189)
.+|+..|+|++.. ++-+-||.++ .+.+||+.||+||+ +...+.+.|+ +|.++=.+.+... ++
T Consensus 63 ~t~i~~~~p~~~att~k~~aersd~~v~~l~lhkRqffHS~t~qPl~leqvmsdrdsE~d~dd~a~~e~~~mLe~fvdvn 142 (221)
T KOG2350|consen 63 ITHILVCRPKRTATTMKEFAERSDGEVEQLRLHKRQFFHSDTCQPLRLEQVMSDRDSEKDEDDWARLETSTMLEEFVDVN 142 (221)
T ss_pred chhhhccchHhhhhcccccccccccceeeeccccceeeeccccCCCCHHHHhccccccccchhhhhhHHHHHHHHhcccc
Confidence 8999999999876 4677778776 56899999999998 4444455554 5666666555554 79
Q ss_pred ccchHHHHHHHHHHHhhccee
Q psy6842 140 GREKELMKLWNLHVMKYGYIV 160 (189)
Q Consensus 140 iADkqIpkacnlFvm~hG~ia 160 (189)
.+++++|+|||.|||+|+.||
T Consensus 143 e~ekr~mkLWNsfVrkqrviA 163 (221)
T KOG2350|consen 143 EGEKRVMKLWNSFVRKQRVIA 163 (221)
T ss_pred HHHHHHHHHHHHHHHHhheec
Confidence 999999999999999999987
No 4
>PF09733 VEFS-Box: VEFS-Box of polycomb protein; InterPro: IPR019135 The VEFS-Box is found in the the C-terminal region of the VRN2, EMF2, FIS2, and Su(z)12 polycomb proteins. This domain is characterised by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain []. In some proteins the VEFS-Box is associated with a zinc-finger domain located roughly 100 residues towards the N terminus. These proteins are part of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression [].
Probab=98.57 E-value=3.9e-08 Score=79.34 Aligned_cols=60 Identities=28% Similarity=0.369 Sum_probs=50.4
Q ss_pred Chhhhchhhhhhhh--cc--cCCCchhh--HHHHHHhhhHhhh---ccccchHHHHHHHHHHHhhccee
Q psy6842 101 DPKWLQTKTKMMID--EF--TDVNEGEK--ELMKLWNLHVMKY---GWGREKELMKLWNLHVMKYGYIV 160 (189)
Q Consensus 101 Dp~wl~~eT~~mLd--EF--~DVSe~EK--e~MklWNsfV~k~---~~iADkqIpkacnlFvm~hG~ia 160 (189)
++.|+|+.||+|+. |+ +.+|++|. +|+..+...+... ++.++|++|++||+|||+++.++
T Consensus 18 ~R~y~Hs~t~~p~~~~e~~sd~DSedE~D~~wl~~~~r~~l~dF~Dv~~~EKefM~lWN~fv~k~r~~a 86 (140)
T PF09733_consen 18 NRQYFHSRTCQPMRPEEVLSDRDSEDEVDDEWLDQKHRRMLDDFSDVNEEEKEFMKLWNSFVMKQRVIA 86 (140)
T ss_pred CcceeccccceeccHHHhcCCCCCCCcCCHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHccCcc
Confidence 67999999999998 88 77899986 6666666555444 78999999999999999998764
No 5
>PF10488 PP1c_bdg: Phosphatase-1 catalytic subunit binding region; InterPro: IPR019523 This entry represents the conserved C terminus of the regulatory subunit (15A and 15B) of protein phosphatase 1. This C-terminal domain appears to be a binding region for the catalytic subunit (PP1C) of protein phosphatase-1, which may in some circumstances also be retroviral in origin since it is found in both herpes simplex virus and in mouse and man. This domain is found in Gadd-34 apoptosis-associated proteins as well as the constitutive repressor of eIF2-alpha phosphorylation/protein phosphatase 1, regulatory (inhibitor) subunit 15b, otherwise known as CReP. Diverse stressful conditions are associated with phosphorylation of the alpha-subunit of eukaryotic translation initiation factor 2 (eIF2-alpha) on serine 51. This signaling event, which is conserved from yeast to mammals, negatively regulates the guanine nucleotide exchange factor, eIF2-B and inhibits the recycling of eIF2 to its active GTP bound form. In mammalian cells eIF2-alpha phosphorylation emerges as an important event in stress signaling that impacts on gene expression at both the translational and transcriptional levels [].
Probab=45.45 E-value=12 Score=34.59 Aligned_cols=34 Identities=18% Similarity=0.419 Sum_probs=21.7
Q ss_pred CCCCChhhhchhhhhhhhcccCCCchhhHHHHHHhhhH
Q psy6842 97 DDQKDPKWLQTKTKMMIDEFTDVNEGEKELMKLWNLHV 134 (189)
Q Consensus 97 EdE~Dp~wl~~eT~~mLdEF~DVSe~EKe~MklWNsfV 134 (189)
++|.++++|+++....-.| .+.+-+=.||||+|-
T Consensus 38 ~~e~eddgfdSd~s~s~s~----~e~d~e~~~LW~s~~ 71 (307)
T PF10488_consen 38 DEEDEDDGFDSDGSLSESD----SEQDSEGLHLWNSFC 71 (307)
T ss_pred ccccccccccccccccccc----ccchhhhHHHHHHhh
Confidence 3444568998886544333 344455589999986
No 6
>PHA03389 polh polyhedrin; Provisional
Probab=37.45 E-value=40 Score=30.26 Aligned_cols=36 Identities=14% Similarity=0.268 Sum_probs=25.1
Q ss_pred hhHHHH-HHhhhHhhh-ccccchHHHHH-------------HHHHHHhhcc
Q psy6842 123 EKELMK-LWNLHVMKY-GWGREKELMKL-------------WNLHVMKYGY 158 (189)
Q Consensus 123 EKe~Mk-lWNsfV~k~-~~iADkqIpka-------------cnlFvm~hG~ 158 (189)
=||+++ -|++||-+. .++.|-|||.+ |=.|+|+|+-
T Consensus 92 GkEfLREtWTrFiedsFPI~ndQEimDvfl~i~~rP~~pNRcyrFlaQhaL 142 (246)
T PHA03389 92 GKEFLRETWTRFMEDSFPIVNDQEVMDVFLVINMRPTRPNRCYRFLAQHAL 142 (246)
T ss_pred cHHHHHHHHHHHHhhcCCccchHHhhhheeeEecccCCCchHHHHHHHHHh
Confidence 344443 588887665 67777888776 5679999963
No 7
>PHA03388 ORF1_granulin Granulin; Provisional
Probab=35.04 E-value=47 Score=29.82 Aligned_cols=36 Identities=22% Similarity=0.455 Sum_probs=25.3
Q ss_pred hhHHHH-HHhhhHhhh-ccccchHHHHH-------------HHHHHHhhcc
Q psy6842 123 EKELMK-LWNLHVMKY-GWGREKELMKL-------------WNLHVMKYGY 158 (189)
Q Consensus 123 EKe~Mk-lWNsfV~k~-~~iADkqIpka-------------cnlFvm~hG~ 158 (189)
=||+++ .|++||.+. .++.|-+||.+ |=.|+++|+-
T Consensus 94 GkEflREtWTrFmedsFPI~ndQeimDvfl~in~rP~~pNRcyrFlaQhaL 144 (248)
T PHA03388 94 GKEFLRETWTRFISEEFPITTDQEIMDLWFELQLRPMQPNRCYKFTMQYAL 144 (248)
T ss_pred cHHHHHHHHHHHHhhcCCccchHHhhhheeeEecccCCCchHHHHHHHHhh
Confidence 344443 588887665 67778888876 5689999963
No 8
>KOG3151|consensus
Probab=34.54 E-value=20 Score=32.58 Aligned_cols=33 Identities=27% Similarity=0.441 Sum_probs=29.8
Q ss_pred CccchhhHHHHhhhHHhhhhhcccccCCcchhh
Q psy6842 2 SGAISLQQTYMEAKFQVFFSGLKRLRSPYFDYQ 34 (189)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 34 (189)
+-+|+|.|.+||..|+-.++..+..-+|.|+|-
T Consensus 138 ~~~v~LEq~~MEGaYnKv~~a~~s~p~~~y~~F 170 (260)
T KOG3151|consen 138 SHPVSLEQSLMEGAYNKVLSAKQSIPSEEYTYF 170 (260)
T ss_pred hhHHHHHHHHHhhHHHHHHHHHhcCCcHHHHHH
Confidence 347899999999999999999999999999873
No 9
>PF14784 ECIST_Cterm: C-terminal domain of the ECSIT protein
Probab=33.97 E-value=27 Score=28.20 Aligned_cols=33 Identities=21% Similarity=0.352 Sum_probs=22.2
Q ss_pred CCcccCCCcc-------eeecccceecCCCCCCCCCCCCC
Q psy6842 68 RPVVSGHNRL-------YHHTITCLPVLPKEMDQDSDDQK 100 (189)
Q Consensus 68 r~y~~ghnR~-------yfHs~tcqPlr~kE~D~DSEdE~ 100 (189)
+=|+.||.+. +|+++++-|.-+++.+..+.||+
T Consensus 16 PvfVEGPf~vwLrd~~V~YfvLradp~p~~~~~~~d~Dd~ 55 (126)
T PF14784_consen 16 PVFVEGPFSVWLRDKCVYYFVLRADPKPPEEFEKEDIDDV 55 (126)
T ss_pred cEEEECCcEEEEcCceEEEEEEeCCCCCccccccccCCCc
Confidence 4466666443 89999999988888644333344
No 10
>PF05299 Peptidase_M61: M61 glycyl aminopeptidase; InterPro: IPR007963 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 M61 (glycyl aminopeptidase family, clan MA(E)).The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The type example is glycyl aminopeptidase from Sphingomonas capsulata.
Probab=24.59 E-value=43 Score=26.71 Aligned_cols=33 Identities=15% Similarity=0.382 Sum_probs=26.6
Q ss_pred eeecccceecCCCCC---CCCCCCCCChhhhchhhh
Q psy6842 78 YHHTITCLPVLPKEM---DQDSDDQKDPKWLQTKTK 110 (189)
Q Consensus 78 yfHs~tcqPlr~kE~---D~DSEdE~Dp~wl~~eT~ 110 (189)
|||+.+..-+||.++ |.+.|.-.+-+|+-+.-.
T Consensus 12 ffH~WnvkrirP~~l~p~dy~~~~~t~~LWv~EG~T 47 (122)
T PF05299_consen 12 FFHSWNVKRIRPAELGPFDYEKPNYTELLWVYEGFT 47 (122)
T ss_pred ccccccceEeccccccCCCCCCCCCCCCEeeeeCcH
Confidence 999999999999875 777777778899876533
Done!