Query psy4692
Match_columns 162
No_of_seqs 129 out of 191
Neff 4.5
Searched_HMMs 46136
Date Fri Aug 16 23:27:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4692.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4692hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11923 DUF3441: Domain of un 100.0 5.9E-43 1.3E-47 265.4 8.2 94 59-152 10-112 (112)
2 KOG2030|consensus 99.9 4.2E-28 9E-33 229.4 8.5 81 73-155 829-909 (911)
3 KOG2030|consensus 97.0 4.2E-06 9.2E-11 81.1 -10.5 90 59-148 339-440 (911)
4 PRK05264 transcriptional repre 46.9 7.5 0.00016 29.5 0.4 17 62-78 61-77 (105)
5 cd00490 Met_repressor_MetJ Met 46.5 7.8 0.00017 29.2 0.4 17 62-78 60-76 (103)
6 PF01340 MetJ: Met Apo-repress 39.0 7.6 0.00016 29.4 -0.7 17 62-78 60-76 (104)
7 PF13867 SAP30_Sin3_bdg: Sin3 38.6 4.7 0.0001 26.7 -1.7 40 88-131 4-45 (53)
8 COG0676 Uncharacterized enzyme 35.1 18 0.0004 32.1 1.0 13 76-88 70-82 (287)
9 COG3060 MetJ Transcriptional r 28.4 22 0.00048 26.7 0.3 16 62-77 61-76 (105)
10 PF10890 DUF2741: Protein of u 19.9 25 0.00055 25.3 -0.7 25 75-99 44-68 (72)
No 1
>PF11923 DUF3441: Domain of unknown function (DUF3441); InterPro: IPR021846 This presumed domain is functionally uncharacterised. This domain is found in archaea and eukaryotes. This domain is typically between 104 to 119 amino acids in length. This domain is found associated with PF05833 from PFAM, PF05670 from PFAM. This domain has two conserved residues (P and G) that may be functionally important.
Probab=100.00 E-value=5.9e-43 Score=265.36 Aligned_cols=94 Identities=56% Similarity=0.920 Sum_probs=91.2
Q ss_pred hhhhhcccccCCCCCCCeEEeeceecccchhhccceeeEEeecCCcchhhHHHHHHHHH--------HhCcCCChhHHHH
Q psy4692 59 AEVDMLDSLTGQPCNEDELLFAVPVVAPYVTLTNYKYKVKLMPGTGKRGKASKTAQNIF--------LKDKNASSREKDL 130 (162)
Q Consensus 59 ~~~~~ld~Ltg~P~~~D~Il~AVPVcAPysAL~~yKYKVKL~PG~~KKGKaak~al~~F--------~~~~~~~~rE~eL 130 (162)
+++.+|++|||+|.++|+|+|||||||||+||++||||||||||++|||||++++|+|| +++.++|++|++|
T Consensus 10 e~~~~l~~ltg~P~~~D~il~aVPVcAP~sal~~yKYkvKl~PG~~KKGKaak~il~~f~~~~~d~~~~~~~~~~~e~~l 89 (112)
T PF11923_consen 10 EYLSELDSLTGTPLPEDEILYAVPVCAPYSALSKYKYKVKLQPGNAKKGKAAKEILEYFTARKVDESMKDKDDWPREREL 89 (112)
T ss_pred HHHHHHHHhcCCCCCCCEEEEEEEeecCHHHHhhCceeEEEcCCCcchHHHHHHHHHHHHhcccchhhcCccCCHHHHHH
Confidence 78899999999999999999999999999999999999999999999999999999999 6677789999999
Q ss_pred HhcCChHHHHhhcC-CceEEecc
Q psy4692 131 IKSVKDEVLARNIP-GKVKLSAP 152 (162)
Q Consensus 131 IK~ik~~el~~~lp-gkvKv~~p 152 (162)
||+|+++|++++|+ |+|||++|
T Consensus 90 ik~~~~~e~~~~~~v~kvKi~~P 112 (112)
T PF11923_consen 90 IKSIKDNELINTLPVGKVKISSP 112 (112)
T ss_pred HccCCHHHHHhhccccCEEEeCC
Confidence 99999999999999 99999987
No 2
>KOG2030|consensus
Probab=99.95 E-value=4.2e-28 Score=229.39 Aligned_cols=81 Identities=63% Similarity=0.953 Sum_probs=78.1
Q ss_pred CCCeEEeeceecccchhhccceeeEEeecCCcchhhHHHHHHHHHHhCcCCChhHHHHHhcCChHHHHhhcCCceEEecc
Q psy4692 73 NEDELLFAVPVVAPYVTLTNYKYKVKLMPGTGKRGKASKTAQNIFLKDKNASSREKDLIKSVKDEVLARNIPGKVKLSAP 152 (162)
Q Consensus 73 ~~D~Il~AVPVcAPysAL~~yKYKVKL~PG~~KKGKaak~al~~F~~~~~~~~rE~eLIK~ik~~el~~~lpgkvKv~~p 152 (162)
++|+|+|||||||||+||++||||||++||++|||||+++||++|.++. |+||++||++++++.++++++|+|||++|
T Consensus 829 ~~D~ll~avPv~aPy~Al~~ykykVKi~PGsgK~gKaak~al~~F~~~~--s~re~~lik~lk~~~~~~~~v~kvkit~~ 906 (911)
T KOG2030|consen 829 KGDTLLFAVPVVAPYNALQKYKYKVKITPGSGKKGKAAKEALNLFTKRP--SPREKELIKSLKDDSLARNLVGKVKITAA 906 (911)
T ss_pred CCceeEEeeccccChHHHHhhceeEEecCCcCcccHHHHHHHHHHhcCC--ChhHHHHHHhcchhHHHhhcccceEEehh
Confidence 9999999999999999999999999999999999999999999999877 99999999999999999999999999999
Q ss_pred chh
Q psy4692 153 QTL 155 (162)
Q Consensus 153 ~~~ 155 (162)
++.
T Consensus 907 q~k 909 (911)
T KOG2030|consen 907 QLK 909 (911)
T ss_pred hhc
Confidence 654
No 3
>KOG2030|consensus
Probab=97.03 E-value=4.2e-06 Score=81.10 Aligned_cols=90 Identities=18% Similarity=0.158 Sum_probs=72.7
Q ss_pred hhhhhcccccCCCCCCCeEEeeceecccchhhccceeeEEeecCCcchhh-HHHHHHHHHHhCcCCChhHHHHHh-----
Q psy4692 59 AEVDMLDSLTGQPCNEDELLFAVPVVAPYVTLTNYKYKVKLMPGTGKRGK-ASKTAQNIFLKDKNASSREKDLIK----- 132 (162)
Q Consensus 59 ~~~~~ld~Ltg~P~~~D~Il~AVPVcAPysAL~~yKYKVKL~PG~~KKGK-aak~al~~F~~~~~~~~rE~eLIK----- 132 (162)
.......+.+..|.++|+..++++||+||.-..+|+|.+||+++-+|||. +|+.++..|+....+|-+..+...
T Consensus 339 qe~~~~kAelIe~N~eLVe~~il~I~s~la~~m~W~dieKLik~eqKkGn~vAk~i~~l~l~~n~~t~~L~d~~dd~~de 418 (911)
T KOG2030|consen 339 QELNRRKAELIEPNPELVEAAILAIQSALAQQMDWKDIEKLIKSEQKKGNPVAKSIDKLKLEKNEATLRLKDPEDDNDDE 418 (911)
T ss_pred HHHHHHHHHhccCCHHHHHHHHHHHHHHHHccCCcHhHHHHHHHHHhcCchHhhhhhHHHHhhhhheeecCCcccccchh
Confidence 55667889999999999999999999999999999999999999999999 889999999987766655555444
Q ss_pred ------cCChHHHHhhcCCceE
Q psy4692 133 ------SVKDEVLARNIPGKVK 148 (162)
Q Consensus 133 ------~ik~~el~~~lpgkvK 148 (162)
...+-||..+.++|++
T Consensus 419 ~k~~e~~~VeiDLslsA~aNAr 440 (911)
T KOG2030|consen 419 KKSSEVIVVEIDLSLSAFANAR 440 (911)
T ss_pred hccccceeeeeeccccchhhHH
Confidence 2234455555555543
No 4
>PRK05264 transcriptional repressor protein MetJ; Provisional
Probab=46.92 E-value=7.5 Score=29.48 Aligned_cols=17 Identities=47% Similarity=0.722 Sum_probs=14.4
Q ss_pred hhcccccCCCCCCCeEE
Q psy4692 62 DMLDSLTGQPCNEDELL 78 (162)
Q Consensus 62 ~~ld~Ltg~P~~~D~Il 78 (162)
.+|..|||+|.|+|.=|
T Consensus 61 AFLHA~TGQPLP~D~Dl 77 (105)
T PRK05264 61 AFLHAFTGQPLPDDEDL 77 (105)
T ss_pred HHHHHHcCCCCCChhhh
Confidence 68999999999998643
No 5
>cd00490 Met_repressor_MetJ Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ forms sufficiently strong interactions with the sugar-phosphate backbone to accomodate sequence variation in natural operators. However, it is very sensitive to particular base changes in the operator. MetJ exists as a homodimer.
Probab=46.48 E-value=7.8 Score=29.22 Aligned_cols=17 Identities=41% Similarity=0.651 Sum_probs=14.4
Q ss_pred hhcccccCCCCCCCeEE
Q psy4692 62 DMLDSLTGQPCNEDELL 78 (162)
Q Consensus 62 ~~ld~Ltg~P~~~D~Il 78 (162)
.+|..|||+|.|+|.=|
T Consensus 60 AFLHAfTGQPLP~D~Dl 76 (103)
T cd00490 60 AFLHAFTGQPLPDDADL 76 (103)
T ss_pred HHHHHhcCCCCCChhhh
Confidence 68999999999998643
No 6
>PF01340 MetJ: Met Apo-repressor, MetJ; InterPro: IPR002084 Binding of a specific DNA fragment and S-adenosyl methionine (SAM) co-repressor molecules to the Escherichia coli methionine repressor (MetJ) leads to a significant reduction in dynamic flexibility of the ternary complex, with considerable entropy-enthalpy compensation, not necessarily involving any overall conformational change []. MetJ is a regulatory protein which when combined with S-adenosylmethionine (SAM) represses the expression of the methionine regulon and of enzymes involved in SAM synthesis. It is also autoregulated. The crystal structure of the met repressor-operator complex shows two dimeric repressor molecules bound to adjacent sites 8 base pairs apart on an 18-base-pair DNA fragment. Sequence specificity is achieved by insertion of double-stranded antiparallel protein beta-ribbons into the major groove of B-form DNA, with direct hydrogen-bonding between amino-acid side chains and the base pairs. The repressor also recognises sequence-dependent distortion or flexibility of the operator phosphate backbone, conferring specificity even for inaccessible base pairs [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006555 methionine metabolic process; PDB: 1MJO_D 1CMB_A 1MJQ_C 1CMC_B 1MJK_A 1MJ2_A 1MJP_A 1MJM_B 1CMA_B 1MJL_A ....
Probab=38.97 E-value=7.6 Score=29.35 Aligned_cols=17 Identities=41% Similarity=0.649 Sum_probs=8.4
Q ss_pred hhcccccCCCCCCCeEE
Q psy4692 62 DMLDSLTGQPCNEDELL 78 (162)
Q Consensus 62 ~~ld~Ltg~P~~~D~Il 78 (162)
.+|..|||+|.|+|.=|
T Consensus 60 AFLHAfTGQPLP~D~dl 76 (104)
T PF01340_consen 60 AFLHAFTGQPLPTDDDL 76 (104)
T ss_dssp HHHHHHH------TTGG
T ss_pred HHHHHhcCCCCCChhhh
Confidence 67999999999988533
No 7
>PF13867 SAP30_Sin3_bdg: Sin3 binding region of histone deacetylase complex subunit SAP30; PDB: 2LD7_A.
Probab=38.61 E-value=4.7 Score=26.69 Aligned_cols=40 Identities=25% Similarity=0.430 Sum_probs=21.6
Q ss_pred hhhccce--eeEEeecCCcchhhHHHHHHHHHHhCcCCChhHHHHH
Q psy4692 88 VTLTNYK--YKVKLMPGTGKRGKASKTAQNIFLKDKNASSREKDLI 131 (162)
Q Consensus 88 sAL~~yK--YKVKL~PG~~KKGKaak~al~~F~~~~~~~~rE~eLI 131 (162)
.+|.+|+ |++.-.|+ .-|-.-+..+..||.... -.|.+.|
T Consensus 4 ~tLrrY~~~~~l~~~~~-~sK~qLa~~V~kHF~s~~---v~E~evI 45 (53)
T PF13867_consen 4 PTLRRYKKHYKLPERPR-SSKEQLANAVRKHFNSQP---VDENEVI 45 (53)
T ss_dssp HHHHHHHHHTT----SS---HHHHHHHHHHHHTT-------HHHHH
T ss_pred HHHHHHHHHhCCCCCCC-CCHHHHHHHHHHHHhcCC---CCHHHHH
Confidence 4677776 46666684 566889999999996644 3444444
No 8
>COG0676 Uncharacterized enzymes related to aldose 1-epimerase [Carbohydrate transport and metabolism]
Probab=35.09 E-value=18 Score=32.05 Aligned_cols=13 Identities=15% Similarity=0.460 Sum_probs=10.5
Q ss_pred eEEeeceecccch
Q psy4692 76 ELLFAVPVVAPYV 88 (162)
Q Consensus 76 ~Il~AVPVcAPys 88 (162)
-|=..||||.||-
T Consensus 70 aIRGGIPICwPWF 82 (287)
T COG0676 70 AIRGGIPICWPWF 82 (287)
T ss_pred cccCCCcEEEecc
Confidence 4457899999986
No 9
>COG3060 MetJ Transcriptional regulator of met regulon [Transcription / Amino acid transport and metabolism]
Probab=28.42 E-value=22 Score=26.72 Aligned_cols=16 Identities=38% Similarity=0.551 Sum_probs=13.8
Q ss_pred hhcccccCCCCCCCeE
Q psy4692 62 DMLDSLTGQPCNEDEL 77 (162)
Q Consensus 62 ~~ld~Ltg~P~~~D~I 77 (162)
.+|..|||+|.|.|+=
T Consensus 61 aflhaftgqplptd~d 76 (105)
T COG3060 61 AFLHAFTGQPLPTDAD 76 (105)
T ss_pred HHHHHHcCCCCCCcHH
Confidence 6799999999999853
No 10
>PF10890 DUF2741: Protein of unknown function (DUF2741); InterPro: IPR020101 This entry represents subunit 8 of the Cytochrome b-c1 complex. The ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex) is part of the mitochondrial respiratory chain. This subunit, together with cytochrome b, binds to ubiquinone. In plants, the b-c1 complex contains 10 subunits: 3 respiratory subunits, 2 core proteins and 5 low-molecular weight proteins.
Probab=19.90 E-value=25 Score=25.28 Aligned_cols=25 Identities=44% Similarity=0.623 Sum_probs=20.2
Q ss_pred CeEEeeceecccchhhccceeeEEe
Q psy4692 75 DELLFAVPVVAPYVTLTNYKYKVKL 99 (162)
Q Consensus 75 D~Il~AVPVcAPysAL~~yKYKVKL 99 (162)
|..++++|+++.|..-.+|+-+-||
T Consensus 44 ~a~~~~~p~~Gt~~Ya~~y~e~EKL 68 (72)
T PF10890_consen 44 SATLFLVPLVGTYWYAENYKEQEKL 68 (72)
T ss_pred eeEEEeeeehhhHHHHHHHHHHHhh
Confidence 5677888999999999999866554
Done!