Query psy3792
Match_columns 224
No_of_seqs 138 out of 196
Neff 4.2
Searched_HMMs 46136
Date Fri Aug 16 17:31:32 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3792.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3792hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3004|consensus 100.0 1.1E-40 2.4E-45 301.6 9.0 205 4-221 14-222 (305)
2 PF07962 Swi3: Replication For 100.0 1.1E-36 2.3E-41 230.9 8.1 83 63-145 1-83 (83)
3 PF00446 GnRH: Gonadotropin-re 81.9 0.3 6.5E-06 24.3 -0.6 10 105-114 1-10 (10)
4 KOG3004|consensus 80.1 1.9 4.2E-05 40.4 3.5 39 185-223 266-304 (305)
5 PF11240 DUF3042: Protein of u 67.6 3.9 8.4E-05 29.5 1.8 19 195-213 35-53 (54)
6 PF09803 DUF2346: Uncharacteri 51.2 37 0.0008 25.9 4.7 31 194-224 50-80 (80)
7 PF00531 Death: Death domain; 34.8 85 0.0019 22.1 4.3 40 96-135 39-78 (83)
8 PF15350 ETAA1: Ewing's tumour 30.1 37 0.00079 35.9 2.3 18 198-215 796-813 (814)
9 PF03462 PCRF: PCRF domain; I 23.5 57 0.0012 25.8 1.9 22 90-111 57-79 (115)
10 KOG1588|consensus 22.8 68 0.0015 29.7 2.4 54 42-95 84-141 (259)
11 cd05026 S-100Z S-100Z: S-100Z 21.1 1.7E+02 0.0038 21.9 4.0 56 73-128 7-83 (93)
12 cd03144 GATase1_ScBLP_like Typ 20.1 2.1E+02 0.0045 23.1 4.5 28 109-137 47-74 (114)
No 1
>KOG3004|consensus
Probab=100.00 E-value=1.1e-40 Score=301.64 Aligned_cols=205 Identities=28% Similarity=0.456 Sum_probs=169.3
Q ss_pred hhcc-ccCCCCCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCcccccCCcccccCCCCccccccccCCCChHHHHHhc
Q psy3792 4 DIFL-DELVDDPEPMLNEDHHPEARESQDEDEQPPPNPSEPSEDAVRVAPKKKVIRNPQPKLNAQRLTGPRGIQCIEQYF 82 (224)
Q Consensus 4 ~~~~-~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~v~pkkk~vRrp~pKLd~erLlsp~GLp~L~k~f 82 (224)
|+|. |..+..|.|++.++ ++ ++.++... ...+.+..++++||++|+++++|++.+|||++|||+|+++|
T Consensus 14 d~~~~~~~~~~p~~~~~~~-----~e--~~~~~~v~---~~~~~~k~l~~rKR~~~~~~~~lsa~~L~s~~Gip~lR~~~ 83 (305)
T KOG3004|consen 14 DSFENDPGQTVPDPSGPEA-----KE--GVKTEGVE---PDGGDPKDLRGRKRAVRVKSPKLSAETLISEKGIPALRDCF 83 (305)
T ss_pred hhcccCCCCCCCCCCCccc-----cc--ccCCCCCC---cCCCCccccccccccccccccccchhhhcCccCchHHHHHH
Confidence 4555 88999999999999 55 33332221 22345667779999999999999999999999999999999
Q ss_pred ccccccCCCChhhhHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHhcCCchHHHHHHHHHhhhhhhhcccccccccCCCC-
Q psy3792 83 KDVKFKGKGHELADLNTIMSNLEHWANRLYPKSNFVDVLKRLEVLGHKRPVMTHIKKIRLGMIEELNQDSNLVLSDTET- 161 (224)
Q Consensus 83 k~~kfKGKGhE~~DL~~LL~~Yq~WaH~LyPK~~F~Dfi~rvEkLG~kk~Vq~~Lk~~R~~l~~~~~~~ed~~~~d~~~- 161 (224)
+++||+||||||.||..||++|+||+|+||||++|+|||.+|++||+++.||++|.+||+++... ++.+.+.....
T Consensus 84 k~~k~kgKg~e~~dL~~llr~y~~WgH~lfPk~kf~D~i~~~etLGk~r~vkv~~~r~rLg~~~~---~~~h~~~~~~~s 160 (305)
T KOG3004|consen 84 KKAKFKGKGHEYIDLKELLRSYQHWGHELFPKAKFDDFINRVETLGKKREVKVDLLRYRLGYFPE---NEEHEHLLLEYS 160 (305)
T ss_pred hhcCcCCCCCcccCHHHHHHHHHHHHHhhcccchhHHHHHHHHhhccccchhhhhhHHHhccCcc---chhhhhhhhhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999988 66655544332
Q ss_pred CCCCCCCCCCchhhhhhccC-CC-CCCCCCchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy3792 162 PAQPQQPTSDDIFNDLLASQ-PS-QHITPVVKEITEAQRERMLRNRQIAEEKRLARLAMEAE 221 (224)
Q Consensus 162 ~~~~~~~~~~d~~d~~~~~~-~~-~~~s~~~~~LteEQ~~Rie~Nr~~AlErR~ar~~~~~~ 221 (224)
+...++.+.+.++|+|+..- .. .....+..+..+.++-++++|.|.|.|||.+.....|+
T Consensus 161 ~~~~q~~as~~~~D~f~~dl~E~~a~~~d~~~~~e~~~~~t~~~~~q~~de~~~~e~~~~s~ 222 (305)
T KOG3004|consen 161 PDHVQHVASDEEVDPFIQDLRERVAVGVDPNKSYEKQEQSTAESDDQVADERRHDEENINSK 222 (305)
T ss_pred chhhhhccccccccHHHHhhHhhhhhccCCCccHHHHHHhhcccccccccccccchhhcccc
Confidence 33256777777788887654 11 12256677788888999999999999999998877765
No 2
>PF07962 Swi3: Replication Fork Protection Component Swi3; InterPro: IPR012923 Replication fork pausing is required to initiate recombination events. More specifically, Swi1 is required for recombination near the mat1 locus. Swi3 has been found to co-purify with Swi1. Together they define a fork protection complex that coordinates leading- and lagging-strand synthesis and stabilises stalled replication forks []. This complex is required for accurate replication, fork protection and replication checkpoint signalling [, ].; GO: 0006974 response to DNA damage stimulus, 0007049 cell cycle, 0048478 replication fork protection, 0005634 nucleus
Probab=100.00 E-value=1.1e-36 Score=230.92 Aligned_cols=83 Identities=40% Similarity=0.751 Sum_probs=81.2
Q ss_pred ccccccccCCCChHHHHHhcccccccCCCChhhhHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHhcCCchHHHHHHHHHh
Q psy3792 63 KLNAQRLTGPRGIQCIEQYFKDVKFKGKGHELADLNTIMSNLEHWANRLYPKSNFVDVLKRLEVLGHKRPVMTHIKKIRL 142 (224)
Q Consensus 63 KLd~erLlsp~GLp~L~k~fk~~kfKGKGhE~~DL~~LL~~Yq~WaH~LyPK~~F~Dfi~rvEkLG~kk~Vq~~Lk~~R~ 142 (224)
|||++||+||+|||+|+++|++++|+|||||++||.+||++||+|||+||||++|+|||.+||+||++++||+|+++||.
T Consensus 1 KLd~~rL~~~~Glp~l~~~~k~~k~kgkghE~~dL~~ll~~Yq~W~h~LfPk~~F~d~i~~vE~LG~~k~v~~~~~~lr~ 80 (83)
T PF07962_consen 1 KLDEERLLSPKGLPYLRKNFKKFKFKGKGHEYEDLRRLLQFYQLWAHRLFPKASFEDFIERVEKLGKKKRVRNYRRELRE 80 (83)
T ss_pred CCCHHHccCCCCHHHHHHHHHHcCcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhh
Q psy3792 143 GMI 145 (224)
Q Consensus 143 ~l~ 145 (224)
+++
T Consensus 81 ~~~ 83 (83)
T PF07962_consen 81 EEK 83 (83)
T ss_pred hcC
Confidence 763
No 3
>PF00446 GnRH: Gonadotropin-releasing hormone; InterPro: IPR002012 The gonadotropin-releasing hormones (GnRH) (gonadoliberin) [] are a family of peptides that play a pivotal role in reproduction. The main function of GnRH is to act on the pituitary to stimulate the synthesis and secretion of luteinizing and follicle-stimulating hormones, but GnRH also acts on the brain, retina, sympathetic nervous system, gonads and placenta in certain species. There seems to be at least three forms of GnRH. The second form is expressed in midbrain and seems to be widespread. The third form has only been found so far in fish. GnRH is a C-terminal amidated decapeptide processed from a larger precursor protein. Four of the ten residues are perfectly conserved in all species where GnRH has been sequenced.; GO: 0005179 hormone activity, 0007275 multicellular organismal development, 0005576 extracellular region
Probab=81.94 E-value=0.3 Score=24.26 Aligned_cols=10 Identities=30% Similarity=0.896 Sum_probs=8.6
Q ss_pred HHHHhhcCCC
Q psy3792 105 EHWANRLYPK 114 (224)
Q Consensus 105 q~WaH~LyPK 114 (224)
|||.|.++|.
T Consensus 1 QHwS~~w~PG 10 (10)
T PF00446_consen 1 QHWSHGWKPG 10 (10)
T ss_pred CccccccCCC
Confidence 6999999983
No 4
>KOG3004|consensus
Probab=80.07 E-value=1.9 Score=40.44 Aligned_cols=39 Identities=13% Similarity=0.100 Sum_probs=33.1
Q ss_pred CCCCCchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHhhc
Q psy3792 185 HITPVVKEITEAQRERMLRNRQIAEEKRLARLAMEAEQK 223 (224)
Q Consensus 185 ~~s~~~~~LteEQ~~Rie~Nr~~AlErR~ar~~~~~~~~ 223 (224)
+..++...|.+||+.+|+.|++.+++|-.|.+.+.+..|
T Consensus 266 ~~~~~ik~len~q~~~ieq~~r~~~~rl~a~qr~~~~~k 304 (305)
T KOG3004|consen 266 PEANAIKALENEQMISIEQRVRMEQNRLKALQRAKARLK 304 (305)
T ss_pred cchHHHHHHHHHHHHHHHHHhhhhHhhhhhhHHHHhhcC
Confidence 346667889999999999999999999999988887655
No 5
>PF11240 DUF3042: Protein of unknown function (DUF3042); InterPro: IPR021402 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=67.56 E-value=3.9 Score=29.45 Aligned_cols=19 Identities=32% Similarity=0.434 Sum_probs=16.4
Q ss_pred HHHHHHHHHhHHHHHHHHH
Q psy3792 195 EAQRERMLRNRQIAEEKRL 213 (224)
Q Consensus 195 eEQ~~Rie~Nr~~AlErR~ 213 (224)
|++-++||.||.+|..+|.
T Consensus 35 e~ke~~~eenRkkA~RK~~ 53 (54)
T PF11240_consen 35 EEKEAKIEENRKKAARKRR 53 (54)
T ss_pred HHHHHHHHHHHHHHHhhcc
Confidence 6788899999999988764
No 6
>PF09803 DUF2346: Uncharacterized conserved protein (DUF2346); InterPro: IPR018625 Members of this family of proteins have no known function.
Probab=51.24 E-value=37 Score=25.93 Aligned_cols=31 Identities=29% Similarity=0.302 Sum_probs=21.5
Q ss_pred hHHHHHHHHHhHHHHHHHHHHHHHHHHhhcC
Q psy3792 194 TEAQRERMLRNRQIAEEKRLARLAMEAEQKK 224 (224)
Q Consensus 194 teEQ~~Rie~Nr~~AlErR~ar~~~~~~~~~ 224 (224)
+.+.++++.+......++|+++.++.+++||
T Consensus 50 ~~~ele~~~~~~~~k~~~rl~~~~e~~~~~~ 80 (80)
T PF09803_consen 50 IREELEEFKEELRKKREERLLREMEEEERKK 80 (80)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 5566666666666666777777777777765
No 7
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=34.84 E-value=85 Score=22.05 Aligned_cols=40 Identities=15% Similarity=0.268 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHhcCCchHHH
Q psy3792 96 DLNTIMSNLEHWANRLYPKSNFVDVLKRLEVLGHKRPVMT 135 (224)
Q Consensus 96 DL~~LL~~Yq~WaH~LyPK~~F~Dfi~rvEkLG~kk~Vq~ 135 (224)
.-...+.++..|..+--|.++....+..+..+|....+..
T Consensus 39 ~~~~~~~~L~~W~~~~~~~at~~~L~~aL~~~~~~d~~~~ 78 (83)
T PF00531_consen 39 LREQTYEMLQRWRQREGPNATVDQLIQALRDIGRNDLAEK 78 (83)
T ss_dssp HHHHHHHHHHHHHHHHGSTSSHHHHHHHHHHTTHHHHHHH
T ss_pred hHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHCCcHHHHHH
Confidence 3567889999999999999999999999999998876543
No 8
>PF15350 ETAA1: Ewing's tumour-associated antigen 1 homologue
Probab=30.13 E-value=37 Score=35.87 Aligned_cols=18 Identities=39% Similarity=0.505 Sum_probs=16.4
Q ss_pred HHHHHHhHHHHHHHHHHH
Q psy3792 198 RERMLRNRQIAEEKRLAR 215 (224)
Q Consensus 198 ~~Rie~Nr~~AlErR~ar 215 (224)
++-|+|-||-||-||+||
T Consensus 796 pEEIqRKRQEALvRR~aK 813 (814)
T PF15350_consen 796 PEEIQRKRQEALVRRMAK 813 (814)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 567999999999999997
No 9
>PF03462 PCRF: PCRF domain; InterPro: IPR005139 This domain is found in peptide chain release factors. Peptide chain release factors are important for protein synthesis since they direct the termination of translation in response to the peptide chain termination codons UAG and UAA. These are structurally distinct but both contain the PCRF domain [].; GO: 0016149 translation release factor activity, codon specific, 0006415 translational termination, 0005737 cytoplasm; PDB: 3D5A_X 3D5C_X 3MR8_V 3MS0_V 3F1G_X 3F1E_X 1ZBT_A 2IHR_1 2X9R_Y 2X9T_Y ....
Probab=23.53 E-value=57 Score=25.81 Aligned_cols=22 Identities=18% Similarity=0.284 Sum_probs=17.1
Q ss_pred CCChhhh-HHHHHHHHHHHHhhc
Q psy3792 90 KGHELAD-LNTIMSNLEHWANRL 111 (224)
Q Consensus 90 KGhE~~D-L~~LL~~Yq~WaH~L 111 (224)
-|.|+.+ -..|++||+.||.+.
T Consensus 57 GG~EA~lfa~~L~~MY~~~a~~~ 79 (115)
T PF03462_consen 57 GGDEACLFAEELFRMYQRYAERR 79 (115)
T ss_dssp STHHHHHHHHHHHHHHHHHHHHT
T ss_pred CchHHHHHHHHHHHHHHHHHHHc
Confidence 4666666 577899999999864
No 10
>KOG1588|consensus
Probab=22.78 E-value=68 Score=29.72 Aligned_cols=54 Identities=28% Similarity=0.399 Sum_probs=34.9
Q ss_pred CCCCCcccccCCcccccCCCCccc-cccccCCCChHH--HHHhcc-cccccCCCChhh
Q psy3792 42 EPSEDAVRVAPKKKVIRNPQPKLN-AQRLTGPRGIQC--IEQYFK-DVKFKGKGHELA 95 (224)
Q Consensus 42 ~~~~~~~~v~pkkk~vRrp~pKLd-~erLlsp~GLp~--L~k~fk-~~kfKGKGhE~~ 95 (224)
.-++.++.+.-|--..-+.-||+| .-|||||+|-.. |.+... ++-++|||.-.+
T Consensus 84 ~~~~~~vk~~~Kv~vPv~~yP~fNFVGRILGPrGnSlkrLe~eTgCki~IrGrgSmrD 141 (259)
T KOG1588|consen 84 VYSGKPVKLTEKVLVPVKEYPKFNFVGRILGPRGNSLKRLEEETGCKIMIRGRGSMRD 141 (259)
T ss_pred CccCCceeEEEEEEeccCCCCCCccccccccCCcchHHHHHHHHCCeEEEecCCcccc
Confidence 345565655444333334478999 889999999764 655432 566788886544
No 11
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=21.12 E-value=1.7e+02 Score=21.86 Aligned_cols=56 Identities=11% Similarity=0.293 Sum_probs=34.2
Q ss_pred CChHHHHHhccccc-ccCCCC--hhhhHHHHHHH-HHH---------HHhhcCC--------CCCHHHHHHHHHHhc
Q psy3792 73 RGIQCIEQYFKDVK-FKGKGH--ELADLNTIMSN-LEH---------WANRLYP--------KSNFVDVLKRLEVLG 128 (224)
Q Consensus 73 ~GLp~L~k~fk~~k-fKGKGh--E~~DL~~LL~~-Yq~---------WaH~LyP--------K~~F~Dfi~rvEkLG 128 (224)
+.|..|+..|..|- ..|.|. ..++|..+|.. .-. ....|+- +.+|.+|+..+.+|+
T Consensus 7 ~a~~~~~~~F~~~dd~dgdg~~Is~~EL~~ll~~~~~~~~~~~~~~~~v~~i~~elD~n~dG~Idf~EF~~l~~~l~ 83 (93)
T cd05026 7 GAMDTLIRIFHNYSGKEGDRYKLSKGELKELLQRELTDFLSSQKDPMLVDKIMNDLDSNKDNEVDFNEFVVLVAALT 83 (93)
T ss_pred HHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHhHHhcccccCHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHH
Confidence 34566777788776 557765 78888888854 110 1122222 357888887777764
No 12
>cd03144 GATase1_ScBLP_like Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP). Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP). Biotin-apoprotein ligase modifies proteins by covalently attaching biotin. ScBLP is known to biotinylate acety-CoA carboxylase and pyruvate carboxylase. The catalytic triad typical of GATase1 domains is not conserved in this GATase1-like domain. However, the Cys residue found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow in a typical GATase1 domain is conserved.
Probab=20.13 E-value=2.1e+02 Score=23.09 Aligned_cols=28 Identities=14% Similarity=0.166 Sum_probs=23.3
Q ss_pred hhcCCCCCHHHHHHHHHHhcCCchHHHHH
Q psy3792 109 NRLYPKSNFVDVLKRLEVLGHKRPVMTHI 137 (224)
Q Consensus 109 H~LyPK~~F~Dfi~rvEkLG~kk~Vq~~L 137 (224)
.-++|-..|.+++..+...| ...|+.++
T Consensus 47 ~lVlPGGa~~~~~~~L~~~g-~~~i~~~v 74 (114)
T cd03144 47 LLVVPGGADLPYCRALNGKG-NRRIRNFV 74 (114)
T ss_pred EEEECCCChHHHHHHHHhhC-cHHHHHHH
Confidence 56899999999999999998 66666554
Done!