Query psy666
Match_columns 102
No_of_seqs 43 out of 45
Neff 2.8
Searched_HMMs 46136
Date Fri Aug 16 23:50:53 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy666.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/666hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10189 DUF2356: Conserved pr 100.0 9.9E-57 2.1E-61 351.5 4.3 92 10-101 56-147 (230)
2 KOG4262|consensus 99.3 2.1E-13 4.6E-18 116.5 1.0 86 12-101 271-357 (496)
3 COG4941 Predicted RNA polymera 41.7 8.4 0.00018 33.6 -0.1 20 25-46 99-120 (415)
4 PF00524 PPV_E1_N: E1 Protein, 39.6 16 0.00034 26.8 1.1 19 11-29 71-89 (130)
5 PLN03075 nicotianamine synthas 30.9 16 0.00036 29.8 -0.0 19 39-57 255-273 (296)
6 cd01902 Ntn_CGH Choloylglycine 28.0 40 0.00086 26.7 1.7 50 52-102 94-158 (291)
7 COG5308 NUP170 Nuclear pore co 27.7 32 0.0007 33.7 1.3 19 81-99 934-952 (1263)
8 PF07491 PPI_Ypi1: Protein pho 24.9 35 0.00075 22.6 0.7 11 39-49 38-48 (60)
9 PF03059 NAS: Nicotianamine sy 24.3 22 0.00048 28.8 -0.3 21 37-57 249-270 (276)
10 KOG3507|consensus 24.1 65 0.0014 21.6 1.9 30 27-56 10-39 (62)
11 cd01935 Ntn_CGH_like Choloylgl 23.5 64 0.0014 23.4 2.0 49 52-101 94-156 (229)
12 PF15051 FAM198: FAM198 protei 23.1 47 0.001 28.4 1.3 19 67-86 163-181 (326)
13 PF08307 Glyco_hydro_98C: Glyc 22.6 37 0.00081 28.1 0.7 42 12-53 192-233 (268)
14 COG1152 CdhA CO dehydrogenase/ 20.3 40 0.00086 31.6 0.4 18 84-101 658-675 (772)
15 PRK00941 acetyl-CoA decarbonyl 20.2 39 0.00085 31.5 0.4 18 84-101 663-680 (781)
No 1
>PF10189 DUF2356: Conserved protein (DUF2356); InterPro: IPR019333 The Integrator complex is involved in small nuclear RNA (snRNA) U1 and U2 transcription, and in their 3'-box-dependent processing. This complex associates with the C-terminal domain of RNA polymerase II largest subunit and is recruited to the U1 and U2 snRNAs genes []. This entry represents subunit 3 of this complex. The function of this subunit is unknown.
Probab=100.00 E-value=9.9e-57 Score=351.47 Aligned_cols=92 Identities=61% Similarity=0.980 Sum_probs=89.9
Q ss_pred hhhhhhchhhhhhccCCCCcchhhheeeeeeccccCCCcccccCCchHHHHHHHHHhhcCchHHHHhhHHHhhhhhhhcc
Q psy666 10 SVLQELQVLPVWYLSTTESQALRYDVIRFIVGVIHPTNELLCSDIIPRWAVIGWLLTSCTSPVVLANCKLALFYDWLCYD 89 (102)
Q Consensus 10 ~~~~~~~Wf~~kyL~tpesesL~~DlIRfIcc~~hPtNevl~SdIipRWavIgWLL~~c~~~~~~anaKLALFyDWLffd 89 (102)
+-.||.+||++|||++||||+||+||||||||+|||+|||++|||+||||||||||++|++++++|||||||||||||||
T Consensus 56 ~~kryq~WF~~kyL~~pesesL~~DlIRfIc~~~hP~Nevl~S~i~pRwavIgwLl~~c~~~~~~~~~KLaLfyDWLffd 135 (230)
T PF10189_consen 56 NQKRYQDWFAKKYLSTPESESLRPDLIRFICCVYHPTNEVLQSDIIPRWAVIGWLLTTCKSNVEQQNAKLALFYDWLFFD 135 (230)
T ss_pred chhHHHHHHHHHhcCCCCcchHHHHHHHHHHHhcCChhcccccchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccC
Confidence 44599999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeeeecCC
Q psy666 90 PEKDNIMNIDQI 101 (102)
Q Consensus 90 ~~~dnIMnIEPa 101 (102)
|++|||||||||
T Consensus 136 ~~~dniMnIEPa 147 (230)
T PF10189_consen 136 PRNDNIMNIEPA 147 (230)
T ss_pred CCCCceeeecHH
Confidence 999999999997
No 2
>KOG4262|consensus
Probab=99.34 E-value=2.1e-13 Score=116.53 Aligned_cols=86 Identities=27% Similarity=0.446 Sum_probs=79.5
Q ss_pred hhhhchhhhhhccCCCCcchhhheeeeeeccccCCCcccccCCchHHHHHHHHHhhcCchHH-HHhhHHHhhhhhhhccC
Q psy666 12 LQELQVLPVWYLSTTESQALRYDVIRFIVGVIHPTNELLCSDIIPRWAVIGWLLTSCTSPVV-LANCKLALFYDWLCYDP 90 (102)
Q Consensus 12 ~~~~~Wf~~kyL~tpesesL~~DlIRfIcc~~hPtNevl~SdIipRWavIgWLL~~c~~~~~-~anaKLALFyDWLffd~ 90 (102)
.+|=.||++++|..++-|+...|+|||+||.+||+|+..-+.+++|||+ |++-.|....+ .|-.=.+|||||+| +
T Consensus 271 k~Hpeals~~LLllkre~ep~~eiVR~vlsr~~p~kdd~fttsalR~~i--~~~ewCqk~~eilaevIksLL~~n~~--~ 346 (496)
T KOG4262|consen 271 KRHPEALSKKLLLLKREEEPLIEIVRFVLSRIHPTKDDIFTTSALRWAI--WLLEWCQKNHEILAEVIKSLLYDNLF--E 346 (496)
T ss_pred ccCHHHHHHHHHhcccccccHHHHHHHHHcCCCCCCCchhhHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhccCc--c
Confidence 3566799999999999999999999999999999999999999999999 99999998766 78888999999999 5
Q ss_pred CCCCeeeecCC
Q psy666 91 EKDNIMNIDQI 101 (102)
Q Consensus 91 ~~dnIMnIEPa 101 (102)
..+|+||.||+
T Consensus 347 s~pnkr~~~pk 357 (496)
T KOG4262|consen 347 SIPNKRNVEPK 357 (496)
T ss_pred cCCccccCCcc
Confidence 67999999996
No 3
>COG4941 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]
Probab=41.72 E-value=8.4 Score=33.63 Aligned_cols=20 Identities=30% Similarity=0.677 Sum_probs=15.4
Q ss_pred CCCCcchhhheee--eeeccccCC
Q psy666 25 TTESQALRYDVIR--FIVGVIHPT 46 (102)
Q Consensus 25 tpesesL~~DlIR--fIcc~~hPt 46 (102)
.++++.+..|+.| |||| ||.
T Consensus 99 ~~~d~~i~Dd~LRLiFvcc--HPa 120 (415)
T COG4941 99 ALDDEHIRDDRLRLIFVCC--HPA 120 (415)
T ss_pred cccccccchhhHHhhhhhc--CCC
Confidence 4568889999999 7777 664
No 4
>PF00524 PPV_E1_N: E1 Protein, N terminal domain; InterPro: IPR014000 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species. The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a centrally-located DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. This entry represents the N-terminal region of E1, which contains the nuclear localisation signal.; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=39.56 E-value=16 Score=26.76 Aligned_cols=19 Identities=26% Similarity=0.300 Sum_probs=16.9
Q ss_pred hhhhhchhhhhhccCCCCc
Q psy666 11 VLQELQVLPVWYLSTTESQ 29 (102)
Q Consensus 11 ~~~~~~Wf~~kyL~tpese 29 (102)
-++.++.++|||+.+|++.
T Consensus 71 d~~~v~~LKRK~~~SP~~~ 89 (130)
T PF00524_consen 71 DERAVQALKRKYLGSPKSK 89 (130)
T ss_pred HHHHHHHHHHHHcCCcccc
Confidence 4688999999999999887
No 5
>PLN03075 nicotianamine synthase; Provisional
Probab=30.86 E-value=16 Score=29.85 Aligned_cols=19 Identities=47% Similarity=0.819 Sum_probs=16.5
Q ss_pred eeccccCCCcccccCCchH
Q psy666 39 IVGVIHPTNELLCSDIIPR 57 (102)
Q Consensus 39 Icc~~hPtNevl~SdIipR 57 (102)
++.++||+++|.+|-|+-|
T Consensus 255 ~~~~~~P~~~v~Nsvi~~r 273 (296)
T PLN03075 255 VLSVFHPTDEVINSVIIAR 273 (296)
T ss_pred EEEEECCCCCceeeEEEEE
Confidence 5668999999999998876
No 6
>cd01902 Ntn_CGH Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that inhabit the gut. CGH has an N-terminal nucleophilic cysteine, as do other members of the Ntn hydrolase family to which CGH belongs.
Probab=27.96 E-value=40 Score=26.74 Aligned_cols=50 Identities=14% Similarity=0.059 Sum_probs=33.1
Q ss_pred cCCchHHHHHHHHHhhcCchHH--HHhh--HHHh-----------hhhhhhccCCCCCeeeecCCC
Q psy666 52 SDIIPRWAVIGWLLTSCTSPVV--LANC--KLAL-----------FYDWLCYDPEKDNIMNIDQIN 102 (102)
Q Consensus 52 SdIipRWavIgWLL~~c~~~~~--~ana--KLAL-----------FyDWLffd~~~dnIMnIEPa~ 102 (102)
..-+.-+.++-|+|.+|++-.+ +.-. ++.. -+-|.+-|. +|+.+-|||-+
T Consensus 94 ~~~l~~~~~~~~vL~~~~tV~Ea~~~l~~~~i~~~~~~~~~~~~~~lH~~i~D~-tG~s~VIE~~~ 158 (291)
T cd01902 94 KPTLSAGAWGQYLLDNYATVEEAVKALAKEPFVIVASVPGDGREATLHLSISDA-TGDSAIIEYID 158 (291)
T ss_pred CCccCHHHHHHHHHhcCCCHHHHHHHHhcCceEEeecCCCCCCcccEEEEEEcC-CCCEEEEEEEC
Confidence 3346789999999999996322 2222 2222 245778886 68888899853
No 7
>COG5308 NUP170 Nuclear pore complex subunit [Intracellular trafficking and secretion]
Probab=27.73 E-value=32 Score=33.67 Aligned_cols=19 Identities=42% Similarity=1.060 Sum_probs=16.8
Q ss_pred hhhhhhhccCCCCCeeeec
Q psy666 81 LFYDWLCYDPEKDNIMNID 99 (102)
Q Consensus 81 LFyDWLffd~~~dnIMnIE 99 (102)
-|||||-|+.+.|-...|+
T Consensus 934 cfYDWlv~~~r~d~Li~Id 952 (1263)
T COG5308 934 CFYDWLVFKGRTDRLIKID 952 (1263)
T ss_pred hhhhhHhhcCccceEEEec
Confidence 3899999999999998886
No 8
>PF07491 PPI_Ypi1: Protein phosphatase inhibitor ; InterPro: IPR011107 These proteins include Ypi1, a novel Saccharomyces cerevisiae type 1 protein phosphatase inhibitor [] and ppp1r11/hcgv (O60927 from SWISSPROT), annotated as having protein phosphatase inhibitor activity [].
Probab=24.86 E-value=35 Score=22.56 Aligned_cols=11 Identities=9% Similarity=0.217 Sum_probs=8.9
Q ss_pred eeccccCCCcc
Q psy666 39 IVGVIHPTNEL 49 (102)
Q Consensus 39 Icc~~hPtNev 49 (102)
+||.||++.+.
T Consensus 38 ~CCIyhk~~~~ 48 (60)
T PF07491_consen 38 CCCIYHKPRAF 48 (60)
T ss_pred eeeeecCCCCC
Confidence 79999998543
No 9
>PF03059 NAS: Nicotianamine synthase protein; InterPro: IPR004298 Nicotianamine synthase 2.5.1.43 from EC catalyzes the trimerization of S-adenosylmethionine to yield one molecule of nicotianamine. Nicotianamine has an important role in plant iron uptake mechanisms. Plants adopt two strategies (termed I and II) of iron acquisition. Strategy I is adopted by all higher plants except graminaceous plants, which adopt strategy II [, ]. In strategy I plants, the role of nicotianamine is not fully determined: possible roles include the formation of more stable complexes with ferrous than with ferric ion, which might serve as a sensor of the physiological status of iron within a plant, or which might be involved in the transport of iron []. In strategy II (graminaceous) plants, nicotianamine is the key intermediate (and nicotianamine synthase the key enzyme) in the synthesis of the mugineic family (the only known family in plants) of phytosiderophores. Phytosiderophores are iron chelators whose secretion by the roots is greatly increased in instances of iron deficiency []. The 3D structures of five example NAS from Methanothermobacter thermautotrophicus reveal the monomer to consist of a five-helical bundle N-terminal domain on top of a classic Rossmann fold C-terminal domain. The N-terminal domain is unique to the NAS family, whereas the C-terminal domain is homologous to the class I family of SAM-dependent methyltransferases. An active site is created at the interface of the two domains, at the rim of a large cavity that corresponds to the nucleotide binding site such as is found in other proteins adopting a Rossmann fold [].; GO: 0030410 nicotianamine synthase activity, 0030418 nicotianamine biosynthetic process; PDB: 3O31_B 3FPH_A 3FPJ_A 3FPE_B 3FPF_B 3FPG_B.
Probab=24.31 E-value=22 Score=28.80 Aligned_cols=21 Identities=43% Similarity=0.743 Sum_probs=10.9
Q ss_pred eeee-ccccCCCcccccCCchH
Q psy666 37 RFIV-GVIHPTNELLCSDIIPR 57 (102)
Q Consensus 37 RfIc-c~~hPtNevl~SdIipR 57 (102)
.|-. ..+||+++|.+|-|+-|
T Consensus 249 gf~~~~~~hP~~~ViNSvv~~r 270 (276)
T PF03059_consen 249 GFEVLAVVHPTDEVINSVVFAR 270 (276)
T ss_dssp TEEEEEEE---TT---EEEEE-
T ss_pred CeEEEEEECCCCCceeEEEEEE
Confidence 6654 68999999999988876
No 10
>KOG3507|consensus
Probab=24.14 E-value=65 Score=21.64 Aligned_cols=30 Identities=23% Similarity=0.289 Sum_probs=24.8
Q ss_pred CCcchhhheeeeeeccccCCCcccccCCch
Q psy666 27 ESQALRYDVIRFIVGVIHPTNELLCSDIIP 56 (102)
Q Consensus 27 esesL~~DlIRfIcc~~hPtNevl~SdIip 56 (102)
..+..++..+=|||+--|--|++...|+|.
T Consensus 10 ~aa~~r~~~miYiCgdC~~en~lk~~D~ir 39 (62)
T KOG3507|consen 10 PAAGPRTATMIYICGDCGQENTLKRGDVIR 39 (62)
T ss_pred ccCCCCcccEEEEeccccccccccCCCcEe
Confidence 333457888999999999999999999874
No 11
>cd01935 Ntn_CGH_like Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which cleave non-peptide carbon-nitrogen bonds in bile salt constituents. These enzymes have an N-terminal nucleophilic cysteine, as do other members of the Ntn hydrolase family to which they belong. This nucleophilic cysteine is exposed by post-translational prossessing of the precursor protein.
Probab=23.51 E-value=64 Score=23.45 Aligned_cols=49 Identities=22% Similarity=0.408 Sum_probs=33.1
Q ss_pred cCCchHHHHHHHHHhhcCchHH--H--HhhHH----------HhhhhhhhccCCCCCeeeecCC
Q psy666 52 SDIIPRWAVIGWLLTSCTSPVV--L--ANCKL----------ALFYDWLCYDPEKDNIMNIDQI 101 (102)
Q Consensus 52 SdIipRWavIgWLL~~c~~~~~--~--anaKL----------ALFyDWLffd~~~dnIMnIEPa 101 (102)
.+-+|-..++-|+|..|++-.+ + .+.++ +-=.=|++-|.. |+..-||+.
T Consensus 94 ~~~~~~~~~~r~vL~~~~tv~ea~~~l~~~~~~~~~~~~~~~~~~~h~~i~D~~-G~~~viE~~ 156 (229)
T cd01935 94 KDGLPAFELIRWVLENCDSVEEVKEALKKIPIVDFPIPLGGPAAPLHYILSDKS-GDSAVIEPI 156 (229)
T ss_pred CCccCHHHHHHHHHHHcCCHHHHHHHHHhCcccccccCCCCCCcCEEEEEEcCC-CCEEEEEEE
Confidence 3568889999999999986222 2 22233 334557788864 888888874
No 12
>PF15051 FAM198: FAM198 protein
Probab=23.11 E-value=47 Score=28.36 Aligned_cols=19 Identities=47% Similarity=0.627 Sum_probs=16.1
Q ss_pred hcCchHHHHhhHHHhhhhhh
Q psy666 67 SCTSPVVLANCKLALFYDWL 86 (102)
Q Consensus 67 ~c~~~~~~anaKLALFyDWL 86 (102)
.|+..+...++||||| |.|
T Consensus 163 ~C~~IhH~EW~klALF-DFL 181 (326)
T PF15051_consen 163 PCTGIHHHEWSKLALF-DFL 181 (326)
T ss_pred CCCccchHHHHHHHHH-HHH
Confidence 5778888999999997 666
No 13
>PF08307 Glyco_hydro_98C: Glycosyl hydrolase family 98 C-terminal domain; InterPro: IPR013190 This putative domain is found at the C terminus of glycosyl hydrolase family 98 proteins. This domain is not expected to form part of the catalytic activity.; PDB: 2WMH_A 2WMG_A 2WMF_A 2WMK_A 2WMJ_B 2WMI_B.
Probab=22.56 E-value=37 Score=28.10 Aligned_cols=42 Identities=21% Similarity=0.201 Sum_probs=29.2
Q ss_pred hhhhchhhhhhccCCCCcchhhheeeeeeccccCCCcccccC
Q psy666 12 LQELQVLPVWYLSTTESQALRYDVIRFIVGVIHPTNELLCSD 53 (102)
Q Consensus 12 ~~~~~Wf~~kyL~tpesesL~~DlIRfIcc~~hPtNevl~Sd 53 (102)
+.-+.|....|.-+|...+||-|.|+--++.-+|+=..+.+|
T Consensus 192 ~~~~~w~~~~y~~n~~d~elRTtti~L~G~~k~Ptit~~~gd 233 (268)
T PF08307_consen 192 LDAYNWVSSNYIVNTIDGELRTTTITLKGASKQPTITNVNGD 233 (268)
T ss_dssp HHHHHHHHHCTTTS------EEEEEEEES-SSSSEEEEEEES
T ss_pred HHHHHHHHhccccCCccccceeEEEEEEccCCCCcEEEeccC
Confidence 456889999999999999999999999999999986654443
No 14
>COG1152 CdhA CO dehydrogenase/acetyl-CoA synthase alpha subunit [Energy production and conversion]
Probab=20.26 E-value=40 Score=31.59 Aligned_cols=18 Identities=22% Similarity=0.599 Sum_probs=16.6
Q ss_pred hhhhccCCCCCeeeecCC
Q psy666 84 DWLCYDPEKDNIMNIDQI 101 (102)
Q Consensus 84 DWLffd~~~dnIMnIEPa 101 (102)
||-.||-++++.|.|||+
T Consensus 658 kwkV~Dartge~~~iepa 675 (772)
T COG1152 658 KWKVYDARTGEEVKIEPA 675 (772)
T ss_pred cceeeecccccccccCCC
Confidence 499999999999999997
No 15
>PRK00941 acetyl-CoA decarbonylase/synthase complex subunit alpha; Validated
Probab=20.15 E-value=39 Score=31.54 Aligned_cols=18 Identities=22% Similarity=0.610 Sum_probs=14.4
Q ss_pred hhhhccCCCCCeeeecCC
Q psy666 84 DWLCYDPEKDNIMNIDQI 101 (102)
Q Consensus 84 DWLffd~~~dnIMnIEPa 101 (102)
||-.||.++|..|.|||+
T Consensus 663 ~w~~~d~~~g~~~~~~p~ 680 (781)
T PRK00941 663 KWKVYDARTGEKVKIEPA 680 (781)
T ss_pred CCeEEecCCCCcccCCCC
Confidence 788888877888888876
Done!