Query T0578 3NAT, Enterococcus faecalis, 164 residues
Match_columns 164
No_of_seqs 24 out of 26
Neff 3.3
Searched_HMMs 11830
Date Sun Jun 13 15:18:04 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0578.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/T0578.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11217 DUF3013: Protein of u 100.0 0 0 493.1 16.6 160 4-163 1-160 (160)
2 PF11536 DUF3226: Protein of u 22.2 20 0.0017 14.4 2.3 21 84-104 53-73 (239)
3 PF10911 DUF2717: Protein of u 20.8 22 0.0018 14.2 3.0 29 91-124 41-69 (77)
4 PF01967 MoaC: MoaC family; I 20.5 22 0.0019 14.2 2.3 38 22-59 68-105 (136)
5 PF09816 EAF: RNA polymerase I 16.1 21 0.0018 14.2 1.2 17 69-85 78-94 (109)
6 PF12202 OSR1_C: Oxidative-str 12.7 34 0.0029 13.0 1.5 20 32-51 18-37 (38)
7 PF07063 DUF1338: Protein of u 10.4 19 0.0016 14.6 -0.4 16 56-72 41-56 (111)
8 PF05396 Phage_T7_Capsid: Phag 8.0 52 0.0044 12.0 2.6 36 95-130 12-47 (123)
9 PF05894 Podovirus_Gp16: Podov 8.0 48 0.0041 12.1 0.8 29 73-104 5-33 (333)
10 PF10850 DUF2653: Protein of u 8.0 6.2 0.00053 17.4 -3.7 41 60-103 5-45 (91)
No 1
>PF11217 DUF3013: Protein of unknown function (DUF3013)
Probab=100.00 E-value=0 Score=493.14 Aligned_cols=160 Identities=52% Similarity=0.873 Sum_probs=159.4
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCEEEEECCCCEEEEEEEEEEEECCCCEEEECCCCEECCCCCEEEECEEEEECCCCCCCC
Q ss_conf 14434899999988730455323772057650799999999746442057515660025762122024477755424532
Q T0578 4 MKKATMLTYLEEQLEKHLGDYEVGLDWDRKNHTIEVIVRLYAENNEQVAIDDVDGTLSEEEFIEFEDGLLFYNPQKSVVD 83 (164)
Q Consensus 4 Mak~~~L~~Lee~ldk~~~~yD~~ldWDKknHaiEv~~~l~aen~~~~e~~D~~G~~s~e~iI~fED~ILfynp~Ks~fd 83 (164)
|||+|||+||+|+|+||+|+||++||||||||+|||+|+|+|||+++++|+|++|++|+|+||+||||||||||+||+||
T Consensus 1 Mak~~~L~~Lee~ldk~dF~~D~~l~WDKknhaiEv~f~l~aen~~~~e~~D~~G~~s~e~ii~feDaiLfYnp~Ks~fd 80 (160)
T PF11217_consen 1 MAKFGFLDVLEEELDKHDFDYDYALNWDKKNHAIEVEFTLEAENKAGVETEDDEGEVSDEDIIEFEDAILFYNPAKSGFD 80 (160)
T ss_pred CCCCCHHHHHHHHHHHCCCCCCEEECCCCCCCEEEEEEEEEEECCCCEEEECCCCCCCCCCCEEEEEEEEEECCCCCCCC
T ss_conf 95110899999999744687524732466673699999999834456167868882537885565678999765214687
Q ss_pred CCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 21237873247422235899999999999998412578888636997203677408899998873011122333246899
Q T0578 84 DEEYLVTIPYEGKKGLRKAVLDGFIHYLKVVLDEGQSDLLDFLSDETAEVFELHWEPADFEAMIKKVAETEKEQWIAYPS 163 (164)
Q Consensus 84 ~ddYLa~iPy~gKkG~s~~~l~~f~~yLq~vld~G~sDLmDFl~D~s~e~F~L~Wd~~~fe~~~~~~~e~~~~~~~~YPk 163 (164)
++||||||||+|||||||++++||++|||+||++|||||||||+|+++++|+|+||+++|++++++++++++++||||||
T Consensus 81 addYL~~iPf~gKkG~s~~~l~~f~~yL~~v~d~G~sDLmDFl~D~~~e~F~L~Wd~~~Fe~~~~~l~e~~~~~~~~YPk 160 (160)
T PF11217_consen 81 ADDYLAVIPFDGKKGLSREFLDYFAQYLQDVADEGQSDLMDFLADDDDEEFELNWDDEAFEAGIAELEETEPRQFYPYPK 160 (160)
T ss_pred HHHEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf 33307862458644420999999999999998715788998746986001788638899998986200234323366998
No 2
>PF11536 DUF3226: Protein of unknown function (DUF3226); PDB: 2p62_A.
Probab=22.21 E-value=20 Score=14.39 Aligned_cols=21 Identities=38% Similarity=0.716 Sum_probs=17.7
Q ss_pred CCCCEEEECCCCCCCHHHHHH
Q ss_conf 212378732474222358999
Q T0578 84 DEEYLVTIPYEGKKGLRKAVL 104 (164)
Q Consensus 84 ~ddYLa~iPy~gKkG~s~~~l 104 (164)
++-|||+||-+||.|+-+...
T Consensus 53 d~v~Lavi~seG~~~v~~~L~ 73 (239)
T PF11536_consen 53 DDVYLAVIHSEGKSGVKRNLK 73 (239)
T ss_dssp TTEEEEEE------SHHHHHH
T ss_pred CCEEEEEEECCCHHHHHHHHH
T ss_conf 786999983777044799999
No 3
>PF10911 DUF2717: Protein of unknown function (DUF2717)
Probab=20.77 E-value=22 Score=14.21 Aligned_cols=29 Identities=31% Similarity=0.426 Sum_probs=20.7
Q ss_pred ECCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHH
Q ss_conf 3247422235899999999999998412578888
Q T0578 91 IPYEGKKGLRKAVLDGFIHYLKVVLDEGQSDLLD 124 (164)
Q Consensus 91 iPy~gKkG~s~~~l~~f~~yLq~vld~G~sDLmD 124 (164)
|..--+.|+|-+|..+|..=||-- |++||
T Consensus 41 i~~Lr~~G~SE~~IaGfl~Gl~~a-----S~~ld 69 (77)
T PF10911_consen 41 IRDLRQAGYSEAFIAGFLKGLQYA-----SRTLD 69 (77)
T ss_pred HHHHHHCCCCHHHHHHHHHHHHHH-----HHHHH
T ss_conf 999988477399999999999999-----99999
No 4
>PF01967 MoaC: MoaC family; InterPro: IPR002820 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cisdithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism , . In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which coverts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner . MoCF is the active co-factor in eukaryotic and some prokaryotic molybdoenzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdoenzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF . Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 () of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) . This entry contain the molybdenum cofactor biosynthesis protein MoaC.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 2ide_D 2iih_A 2ekn_C 2ohd_F 1eks_A 1ekr_A 2eey_A.
Probab=20.54 E-value=22 Score=14.19 Aligned_cols=38 Identities=11% Similarity=0.290 Sum_probs=30.5
Q ss_pred CCCCEEEEECCCCEEEEEEEEEEEECCCCEEEECCCCE
Q ss_conf 55323772057650799999999746442057515660
Q T0578 22 GDYEVGLDWDRKNHTIEVIVRLYAENNEQVAIDDVDGT 59 (164)
Q Consensus 22 ~~yD~~ldWDKknHaiEv~~~l~aen~~~~e~~D~~G~ 59 (164)
..-++.++|+-..+.|++..+--...+-|+|++--.|.
T Consensus 68 ~~v~v~~~~~~~~~~v~i~~~v~t~~kTGVEMEALtav 105 (136)
T PF01967_consen 68 TGVDVDFEVDDDENSVEIRATVKTTGKTGVEMEALTAV 105 (136)
T ss_dssp CEEEEEEEEECCCTEEEEEEEEEEEE----HHHHHHHH
T ss_pred CEEEEEEEECCCCCEEEEEEEEEEECCCCCCHHHHHHH
T ss_conf 26899999858885899999999835886128999999
No 5
>PF09816 EAF: RNA polymerase II transcription elongation factor
Probab=16.12 E-value=21 Score=14.24 Aligned_cols=17 Identities=18% Similarity=0.440 Sum_probs=12.8
Q ss_pred ECEEEEECCCCCCCCCC
Q ss_conf 02447775542453221
Q T0578 69 EDGLLFYNPQKSVVDDE 85 (164)
Q Consensus 69 ED~ILfynp~Ks~fd~d 85 (164)
.|+||+|||....|--+
T Consensus 78 ~~~VLifD~~~~~f~Le 94 (109)
T PF09816_consen 78 KECVLIFDPETKAFVLE 94 (109)
T ss_pred CEEEEEEECCCCEEEEE
T ss_conf 54999995999979999
No 6
>PF12202 OSR1_C: Oxidative-stress-responsive kinase 1 C terminal; PDB: 2v3s_B.
Probab=12.65 E-value=34 Score=13.04 Aligned_cols=20 Identities=30% Similarity=0.413 Sum_probs=13.9
Q ss_pred CCCEEEEEEEEEEEECCCCE
Q ss_conf 76507999999997464420
Q T0578 32 RKNHTIEVIVRLYAENNEQV 51 (164)
Q Consensus 32 KknHaiEv~~~l~aen~~~~ 51 (164)
|.|++|+-+|.+.-..+++|
T Consensus 18 keneaI~F~F~~~~D~~e~v 37 (38)
T PF12202_consen 18 KENEAIEFEFDLGKDTAEEV 37 (38)
T ss_dssp --EEEEEEEE----------
T ss_pred CCCCCEEEEEECCCCCCCCC
T ss_conf 55664789885388880405
No 7
>PF07063 DUF1338: Protein of unknown function (DUF1338); InterPro: IPR009770 This entry represents the C terminus (approximately 100 residues) of a number of hypothetical bacterial proteins of unknown function.; PDB: 2rjb_C.
Probab=10.43 E-value=19 Score=14.56 Aligned_cols=16 Identities=31% Similarity=0.569 Sum_probs=13.0
Q ss_pred CCCEECCCCCEEEECEE
Q ss_conf 56600257621220244
Q T0578 56 VDGTLSEEEFIEFEDGL 72 (164)
Q Consensus 56 ~~G~~s~e~iI~fED~I 72 (164)
+.|.+.-+||| |||-.
T Consensus 41 ~~G~v~~ePIv-YEDFL 56 (111)
T PF07063_consen 41 ASGLVQAEPIV-YEDFL 56 (111)
T ss_dssp H---EEEEE-----S--
T ss_pred HCCCCCCCCCC-HHCCC
T ss_conf 87981316700-00247
No 8
>PF05396 Phage_T7_Capsid: Phage T7 capsid assembly protein; InterPro: IPR008768 This family contains the capsid assembly protein (scaffolding protein) of bacteriophage T7.; GO: 0019069 viral capsid assembly
Probab=8.00 E-value=52 Score=11.97 Aligned_cols=36 Identities=11% Similarity=0.339 Sum_probs=30.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCC
Q ss_conf 422235899999999999998412578888636997
Q T0578 95 GKKGLRKAVLDGFIHYLKVVLDEGQSDLLDFLSDET 130 (164)
Q Consensus 95 gKkG~s~~~l~~f~~yLq~vld~G~sDLmDFl~D~s 130 (164)
.+-|++|+|++.++.=-+-++++=-+-.|.+.-+.+
T Consensus 12 a~aGYsr~fVDsyI~GQEAL~~Qyv~sv~~yaGG~e 47 (123)
T PF05396_consen 12 AKAGYSRQFVDSYIRGQEALAEQYVNSVVEYAGGRE 47 (123)
T ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH
T ss_conf 984873889999988999999999999999815699
No 9
>PF05894 Podovirus_Gp16: Podovirus DNA encapsidation protein (Gp16); InterPro: IPR008784 This family consists of several DNA encapsidation protein (Gp16) sequences from the phi-29-like viruses. Gene product 16 catalyses the in vivo and in vitro genome-encapsidation reaction .; GO: 0005524 ATP binding, 0019069 viral capsid assembly
Probab=7.99 E-value=48 Score=12.14 Aligned_cols=29 Identities=38% Similarity=0.613 Sum_probs=0.0
Q ss_pred EEECCCCCCCCCCCCEEEECCCCCCCHHHHHH
Q ss_conf 77755424532212378732474222358999
Q T0578 73 LFYNPQKSVVDDEEYLVTIPYEGKKGLRKAVL 104 (164)
Q Consensus 73 Lfynp~Ks~fd~ddYLa~iPy~gKkG~s~~~l 104 (164)
+||+|+|..--+.---.+| |.+|+-|.|+
T Consensus 5 ~~~~p~k~lsyd~~~~~vi---G~RgvGKtfa 33 (333)
T PF05894_consen 5 LYYNPQKMLSYDRILNFVI---GARGVGKTFA 33 (333)
T ss_pred CCCCHHHHHHHCCEEEEEE---CCCCCCHHHH
T ss_conf 0369889730161248898---1565452467
No 10
>PF10850 DUF2653: Protein of unknown function (DUF2653)
Probab=7.96 E-value=6.2 Score=17.44 Aligned_cols=41 Identities=22% Similarity=0.490 Sum_probs=0.0
Q ss_pred ECCCCCEEEECEEEEECCCCCCCCCCCCEEEECCCCCCCHHHHH
Q ss_conf 02576212202447775542453221237873247422235899
Q T0578 60 LSEEEFIEFEDGLLFYNPQKSVVDDEEYLVTIPYEGKKGLRKAV 103 (164)
Q Consensus 60 ~s~e~iI~fED~ILfynp~Ks~fd~ddYLa~iPy~gKkG~s~~~ 103 (164)
.|+.+|| +|||.|--.|....-+|-.|-+-|+-.-|++.++
T Consensus 5 i~eqdII---nAvC~~~A~~r~i~PedV~veL~ydd~tGf~AEv 45 (91)
T PF10850_consen 5 ISEQDII---NAVCLYIADQRQIYPEDVEVELSYDDDTGFSAEV 45 (91)
T ss_pred CCHHHHH---HHHHHHHHHHCCCCCCCEEEEEEEECCCCCEEEE
T ss_conf 0588999---9999988864357850279999971677803899
Done!