Query psy286
Match_columns 284
No_of_seqs 120 out of 474
Neff 3.0
Searched_HMMs 46136
Date Fri Aug 16 18:42:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy286.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/286hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK08183 NADH dehydrogenase; V 100.0 1.1E-39 2.4E-44 274.1 8.7 109 163-277 13-133 (133)
2 PLN03095 NADH:ubiquinone oxido 100.0 1.3E-38 2.9E-43 262.4 9.0 103 170-276 4-115 (115)
3 PLN02732 Probable NADH dehydro 100.0 6.2E-37 1.3E-41 264.0 10.1 112 163-278 37-158 (159)
4 KOG3382|consensus 100.0 2E-37 4.3E-42 263.1 4.3 105 174-279 45-150 (151)
5 PF05071 NDUFA12: NADH ubiquin 100.0 1E-34 2.2E-39 232.7 5.0 95 176-275 1-105 (105)
6 COG3761 NADH:ubiquinone oxidor 100.0 9.1E-32 2E-36 220.9 6.2 96 175-276 12-118 (118)
7 PRK06630 hypothetical protein; 99.9 1.1E-27 2.3E-32 193.7 4.6 73 170-250 7-81 (99)
8 PF15613 WHIM2: WSTF, HB1, Itc 87.3 0.67 1.4E-05 32.3 2.8 13 180-192 5-17 (38)
9 COG0435 ECM4 Predicted glutath 22.8 21 0.00045 35.1 -0.9 25 3-27 48-72 (324)
10 cd00580 CHMI 5-carboxymethyl-2 16.8 1.3E+02 0.0028 24.1 2.6 58 103-162 36-93 (113)
No 1
>PRK08183 NADH dehydrogenase; Validated
Probab=100.00 E-value=1.1e-39 Score=274.12 Aligned_cols=109 Identities=30% Similarity=0.569 Sum_probs=98.2
Q ss_pred cceeeeeeeeecCCCcceeccCCCCeeeEcCCC---CCCceeEEEcCCCCCcCcCCCCCCchhhhhhccccCCCCCCCCC
Q psy286 163 VAVCHSALWVIRPCSLPQLSSSSGNKYYENPRY---FFGRNRWVIYNPDVGLNYDGSMVPAEWYGWLHYKTDYTPCEDPG 239 (284)
Q Consensus 163 ~~~~~~~~~~~R~g~l~VGeDefGNKYYE~p~~---~~GRrRWVeYa~~~~~dyDaSqIPPEWH~WLHhtRDePPT~eEI 239 (284)
++.++++++++|+++| ||+|++||||||+++. ..+++|||+|++. +|+|+||||||+||||++|+||++++
T Consensus 13 g~t~~t~~~~~r~g~l-VG~D~~GNkYYE~~~~~~~~~~~rRWV~Y~~~----~d~s~IPpeWh~WLh~~~d~pPt~~~- 86 (133)
T PRK08183 13 GQTLGTRFFTWRKGER-VGEDEFGNVYYRTKGGKPSDGRERRWVIYNGY----AEASRIPPEWHGWLHHTVDVPPTKEP- 86 (133)
T ss_pred cCchhheeehhccCeE-eEecCCCCeeeecCCccccCCCceEEEEeCCC----CCccccCchHHhhhccCcCCCCCccc-
Confidence 4578999999999998 9999999999999873 3457999999996 89999999999999999999999988
Q ss_pred CCCCCccCCCcCCCCCCCCccccCCCC---------CCCccccCCCC
Q psy286 240 RPVYKWMAEHTQNMSGSNKEYVPYSTT---------RDKIQAWTPPS 277 (284)
Q Consensus 240 ~~~kkWqk~H~pNlTGT~~AY~Py~Tt---------k~KYeaW~P~~ 277 (284)
+.+++|+++|+||||||++||+|+++. +.+||||+|+.
T Consensus 87 ~~~~~w~~~H~~N~TGT~~aY~P~G~~~~~~~r~~~~~dY~aW~P~~ 133 (133)
T PRK08183 87 YPPREWEKPHQPNLTGTPLAYRPKGSILRGGERPRATGDYDAWTPGN 133 (133)
T ss_pred cCCCccccCCCCCCCCCccceeCCCccccCCcCCcccCCcccCCCCC
Confidence 578889999999999999999999862 35799999973
No 2
>PLN03095 NADH:ubiquinone oxidoreductase 18 kDa subunit; Provisional
Probab=100.00 E-value=1.3e-38 Score=262.40 Aligned_cols=103 Identities=35% Similarity=0.671 Sum_probs=93.3
Q ss_pred eeeecCCCcceeccCCCCeeeEcCCCCCCceeEEEcCCCCCcCcCCCCCCchhhhhhccccCCCCCCCCCCCCCCccCCC
Q psy286 170 LWVIRPCSLPQLSSSSGNKYYENPRYFFGRNRWVIYNPDVGLNYDGSMVPAEWYGWLHYKTDYTPCEDPGRPVYKWMAEH 249 (284)
Q Consensus 170 ~~~~R~g~l~VGeDefGNKYYE~p~~~~GRrRWVeYa~~~~~dyDaSqIPPEWH~WLHhtRDePPT~eEI~~~kkWqk~H 249 (284)
-|-.|+++| ||+|+|||+|||++.+..|++|||+|++. .+||+|+||||||+||||++|+||++++ +..+.|+++|
T Consensus 4 ~~~~r~g~l-VG~D~~GNkYYE~~~~~~~rrRWV~Y~~~--~d~d~S~VPpeWH~WLh~~~d~pPt~~~-~~~~~w~~~H 79 (115)
T PLN03095 4 VLASRAGRL-VGEDEFGNKYYENPSYQSGRHRWVEYADK--DDYNASNIPPEWHGWLHYVNDEPGELED-RTAPRYQLEF 79 (115)
T ss_pred eeeeecceE-eEEcCCCCeeeEcCCCCCCCeEEEEeCCC--ccCCccccCchHhHhhccCcCCCCCccc-cCCCccccCC
Confidence 466788998 99999999999999877789999999996 3689999999999999999999999877 7788999999
Q ss_pred cCCCC--CCCCccccCCCC-------CCCccccCCC
Q psy286 250 TQNMS--GSNKEYVPYSTT-------RDKIQAWTPP 276 (284)
Q Consensus 250 ~pNlT--GT~~AY~Py~Tt-------k~KYeaW~P~ 276 (284)
++||| ||+.||+|.++. +.+|+||+|+
T Consensus 80 ~~NlT~tGT~~aY~P~Gs~~~~~~~~~~dY~aW~P~ 115 (115)
T PLN03095 80 IAGGTTTGTQYMYHPKGHFLSKRPRNWKRYTPWSPP 115 (115)
T ss_pred CCCcCCCCCccceeCCCccccCCCCcccCccCCCCC
Confidence 99999 899999999863 4679999995
No 3
>PLN02732 Probable NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit
Probab=100.00 E-value=6.2e-37 Score=264.05 Aligned_cols=112 Identities=33% Similarity=0.550 Sum_probs=95.9
Q ss_pred cceeeeeeeeecCCCcceeccCCCCeeeEcCC-CCCCceeEEEcCCCCCcCcCCCCCCchhhhhhccccCCCCCCCCCCC
Q psy286 163 VAVCHSALWVIRPCSLPQLSSSSGNKYYENPR-YFFGRNRWVIYNPDVGLNYDGSMVPAEWYGWLHYKTDYTPCEDPGRP 241 (284)
Q Consensus 163 ~~~~~~~~~~~R~g~l~VGeDefGNKYYE~p~-~~~GRrRWVeYa~~~~~dyDaSqIPPEWH~WLHhtRDePPT~eEI~~ 241 (284)
+..+++.++++ .++| ||+|+|||||||++. ...||+|||+|++. .+||+|+||||||+||||++|+||++.+.+.
T Consensus 37 g~t~gt~~~~~-~G~l-VG~D~~GNkYYE~~~~~~~grrRWV~Y~~~--~~~daS~VPpeWH~WLH~~~D~pP~~~~~~~ 112 (159)
T PLN02732 37 GNLLQTKIHNI-GATL-VGVDKFGNKYYQKLGDTQYGRHRWVEYAEK--SRYNASQVPAEWHGWLHFITDHTGDELLMLK 112 (159)
T ss_pred cceeeeEEEee-CcEE-EEecCCCCeeeecCCCCCCCceeEEEeCCC--ccCCcCcCCchhhhhhccccCCCCccccccC
Confidence 55778888888 7887 999999999999985 56789999999986 3589999999999999999999999733367
Q ss_pred CCCccCCCcCCCCCCC--CccccCCC-------CCCCccccCCCCC
Q psy286 242 VYKWMAEHTQNMSGSN--KEYVPYST-------TRDKIQAWTPPSS 278 (284)
Q Consensus 242 ~kkWqk~H~pNlTGT~--~AY~Py~T-------tk~KYeaW~P~~a 278 (284)
+++|+++|+||||||+ .||+|.++ .+.+|+||+|++.
T Consensus 113 ~~~w~~~H~pNlTGT~~~~ay~p~Gs~~~~g~~~~~dYeaW~P~~~ 158 (159)
T PLN02732 113 PKRYGLEHKENFSGEGEEYIYHSKGHTLNPGQKDWTRYQSWQPTKT 158 (159)
T ss_pred CCccccCCCCCcCCCCCCceECCCcccccCCCCcccCccCCCCCCC
Confidence 7889999999999998 67788765 2457999999875
No 4
>KOG3382|consensus
Probab=100.00 E-value=2e-37 Score=263.09 Aligned_cols=105 Identities=51% Similarity=0.964 Sum_probs=99.3
Q ss_pred cCCCcceeccCCCCeeeEcCCCCCCceeEEEcCCCCCcCcCCCCCCchhhhhhccccCCCCCCCCCCCCCCccCCCcCCC
Q psy286 174 RPCSLPQLSSSSGNKYYENPRYFFGRNRWVIYNPDVGLNYDGSMVPAEWYGWLHYKTDYTPCEDPGRPVYKWMAEHTQNM 253 (284)
Q Consensus 174 R~g~l~VGeDefGNKYYE~p~~~~GRrRWVeYa~~~~~dyDaSqIPPEWH~WLHhtRDePPT~eEI~~~kkWqk~H~pNl 253 (284)
+.|+| ||.|+|||||||++.++.||+|||||+...++|||+|+||||||+|||+++|+||+..-.+++++|..+|.+|+
T Consensus 45 kiGTL-VG~DkfGNkYyen~~~fygRhRWVeya~kv~~Dyd~S~VP~EWh~WlH~iTD~~p~~~~~~~~~k~i~eHkeN~ 123 (151)
T KOG3382|consen 45 KIGTL-VGVDKFGNKYYENNDYFYGRHRWVEYASKVNWDYDASQVPAEWHGWLHFITDDPPDEKLPLPPKKWILEHKENF 123 (151)
T ss_pred cceee-eeecccccchhcccceecccceeEEecccccccccccCCCHHHHhHhHhhccCCccccCCCCHHHHhHhccccc
Confidence 34788 99999999999999999999999999999999999999999999999999999999985589999999999999
Q ss_pred CC-CCCccccCCCCCCCccccCCCCCC
Q psy286 254 SG-SNKEYVPYSTTRDKIQAWTPPSSS 279 (284)
Q Consensus 254 TG-T~~AY~Py~Ttk~KYeaW~P~~a~ 279 (284)
|| |..+|+||+|++.|||+|.|..+.
T Consensus 124 Sg~t~e~y~Pystt~tkiq~W~P~~t~ 150 (151)
T KOG3382|consen 124 SGETGETYVPYSTTRTKIQSWVPTKTP 150 (151)
T ss_pred cccCCceeccCcCChhHhheecCCCCC
Confidence 99 999999999999999999998753
No 5
>PF05071 NDUFA12: NADH ubiquinone oxidoreductase subunit NDUFA12; InterPro: IPR007763 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. this entry represents the 17.2kDa subunit from NADH:ubiquinone oxidoreductase and its homologues []. This subunit is believed to be one of the 36 structural complex I proteins.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0009055 electron carrier activity, 0016020 membrane
Probab=100.00 E-value=1e-34 Score=232.70 Aligned_cols=95 Identities=40% Similarity=0.766 Sum_probs=86.1
Q ss_pred CCcceeccCCCCeeeEcC-CCCCCceeEEEcCCCCCcCcCCCCCCchhhhhhccccCCCCCCCCCCCCCCccCCCcCCCC
Q psy286 176 CSLPQLSSSSGNKYYENP-RYFFGRNRWVIYNPDVGLNYDGSMVPAEWYGWLHYKTDYTPCEDPGRPVYKWMAEHTQNMS 254 (284)
Q Consensus 176 g~l~VGeDefGNKYYE~p-~~~~GRrRWVeYa~~~~~dyDaSqIPPEWH~WLHhtRDePPT~eEI~~~kkWqk~H~pNlT 254 (284)
|+| ||+|+|||+|||++ ....+++|||+|++.. +|++++||||||+||||++++|||+++ +....|+++|++|+|
T Consensus 1 G~l-VG~D~~GN~YyE~~~~~~~~~rRwV~y~~~~--~~~~s~IPpeWh~WL~~~r~~pPt~~~-~~~~~~~~~~~~n~t 76 (105)
T PF05071_consen 1 GTL-VGTDEFGNKYYENPRDEQGRRRRWVEYAGKS--DYDPSQIPPEWHAWLHHTRDEPPTEEE-LARRQWQKPHKPNLT 76 (105)
T ss_pred CCE-eeEeCCCCEEEeecCCCcCCCcEEEEcCCcc--ccCcCccCcchHHHhccCcCCCCCccc-cchHHHHHHhhhhhh
Confidence 566 99999999999999 5566789999999984 688999999999999999999999887 567799999999999
Q ss_pred CCCCccccCCCCCC---------CccccCC
Q psy286 255 GSNKEYVPYSTTRD---------KIQAWTP 275 (284)
Q Consensus 255 GT~~AY~Py~Ttk~---------KYeaW~P 275 (284)
||..+|.|+++ ++ ||+||+|
T Consensus 77 ~~~~ay~p~~~-~~~~~~~~~~~~y~~W~P 105 (105)
T PF05071_consen 77 GTEEAYRPKGT-KSKEREQRNWKKYEAWTP 105 (105)
T ss_pred cChHhhcCCCc-ccccccccccCCccCCCC
Confidence 99999999998 54 5999998
No 6
>COG3761 NADH:ubiquinone oxidoreductase 17.2 kD subunit [Energy production and conversion]
Probab=99.97 E-value=9.1e-32 Score=220.93 Aligned_cols=96 Identities=33% Similarity=0.605 Sum_probs=85.8
Q ss_pred CCCcceeccCCCCeeeEc-CCCCCCc-eeEEEcCCCCCcCcCCCCCCchhhhhhccccCCCCCCCCCCCCCCccCCCcCC
Q psy286 175 PCSLPQLSSSSGNKYYEN-PRYFFGR-NRWVIYNPDVGLNYDGSMVPAEWYGWLHYKTDYTPCEDPGRPVYKWMAEHTQN 252 (284)
Q Consensus 175 ~g~l~VGeDefGNKYYE~-p~~~~GR-rRWVeYa~~~~~dyDaSqIPPEWH~WLHhtRDePPT~eEI~~~kkWqk~H~pN 252 (284)
+.+ +||+|+|||.|||. ..+..|| +|||||++. .++|.|||+||+||||+.|+||+.+. +.++.||++|+||
T Consensus 12 fh~-kvGeDefgN~Yye~r~~ds~gr~RRwVIYngy----aEas~IPp~WhgWlHh~vd~~P~~~~-~~~reWqKph~pn 85 (118)
T COG3761 12 FHK-KVGEDEFGNVYYEGRNIDSEGRTRRWVIYNGY----AEASKIPPGWHGWLHHRVDEPPKSEQ-LFPREWQKPHLPN 85 (118)
T ss_pred HHH-hccchhccceeeeccCCccCCCeeeEEEEcCc----chhccCCCchhhhhhhhccCCccccc-cchhhhccccccC
Confidence 344 49999999999998 4456677 999999998 78999999999999999999999988 8888999999999
Q ss_pred CCCCCCccccCCCC---------CCCccccCCC
Q psy286 253 MSGSNKEYVPYSTT---------RDKIQAWTPP 276 (284)
Q Consensus 253 lTGT~~AY~Py~Tt---------k~KYeaW~P~ 276 (284)
||||..||+|.++. ..+|++|+|.
T Consensus 86 ~tgt~~a~rPkgs~~~~gerp~~t~dYdaWtP~ 118 (118)
T COG3761 86 LTGTPHAYRPKGSLARAGERPRVTGDYDAWTPG 118 (118)
T ss_pred CCCCcceeccCccccccCcCccccccccccCCC
Confidence 99999999999873 2479999994
No 7
>PRK06630 hypothetical protein; Provisional
Probab=99.94 E-value=1.1e-27 Score=193.72 Aligned_cols=73 Identities=22% Similarity=0.452 Sum_probs=64.5
Q ss_pred eeeecCCCcceeccCCCCeeeEcCC--CCCCceeEEEcCCCCCcCcCCCCCCchhhhhhccccCCCCCCCCCCCCCCccC
Q psy286 170 LWVIRPCSLPQLSSSSGNKYYENPR--YFFGRNRWVIYNPDVGLNYDGSMVPAEWYGWLHYKTDYTPCEDPGRPVYKWMA 247 (284)
Q Consensus 170 ~~~~R~g~l~VGeDefGNKYYE~p~--~~~GRrRWVeYa~~~~~dyDaSqIPPEWH~WLHhtRDePPT~eEI~~~kkWqk 247 (284)
|+++|+|+| ||+|+|||+|||+.. ++.+++|||+|++. +|||+||||||+||||+.|+||+ + +.++.||+
T Consensus 7 ~~t~r~G~l-VG~D~~GNkYYE~~~~~~~gr~rRWViY~g~----~daS~VPpeWHgWLHh~~D~pPt--~-~~~k~WqK 78 (99)
T PRK06630 7 FFITFFHKK-VGEDEFLNQYYESRNIDYLGRPRRFVIYKNV----NEPTKIPPSWHAWLHHLVNEIPK--N-IQLFPWQK 78 (99)
T ss_pred hhhhccCeE-eEEeCCCChhcccCCCccCCCceEEEEeCCC----CccccCCcchhhhhccccCCCCC--C-CCCccccC
Confidence 788999998 999999999999864 33456999999996 89999999999999999999999 3 67999998
Q ss_pred CCc
Q psy286 248 EHT 250 (284)
Q Consensus 248 ~H~ 250 (284)
+..
T Consensus 79 p~~ 81 (99)
T PRK06630 79 NNK 81 (99)
T ss_pred cch
Confidence 743
No 8
>PF15613 WHIM2: WSTF, HB1, Itc1p, MBD9 motif 2
Probab=87.33 E-value=0.67 Score=32.31 Aligned_cols=13 Identities=23% Similarity=0.261 Sum_probs=12.1
Q ss_pred eeccCCCCeeeEc
Q psy286 180 QLSSSSGNKYYEN 192 (284)
Q Consensus 180 VGeDefGNKYYE~ 192 (284)
+|.|.+||+||-.
T Consensus 5 LG~DR~~NrYwwf 17 (38)
T PF15613_consen 5 LGKDRYGNRYWWF 17 (38)
T ss_pred ccccCCCceEEEE
Confidence 6999999999987
No 9
>COG0435 ECM4 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]
Probab=22.83 E-value=21 Score=35.13 Aligned_cols=25 Identities=40% Similarity=0.713 Sum_probs=21.5
Q ss_pred CCCccccccCCCCcCccceeehhhh
Q psy286 3 GKNRYWSTVPRSLPWSHRTVTAKVL 27 (284)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~ 27 (284)
-+.|||--|...-||.|||+...-|
T Consensus 48 e~GRYhLYvslaCPWAHRTLI~R~L 72 (324)
T COG0435 48 EKGRYHLYVSLACPWAHRTLIFRAL 72 (324)
T ss_pred CCCeEEEEEEecCchHHHHHHHHHH
Confidence 3789999999999999999876554
No 10
>cd00580 CHMI 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the homoprotocatechuate pathway, one of the microbial meta-fission pathways that degrade aromatic carbon sources to citric acid cycle intermediates. Despite the structural similarity of CHMI with 4-oxalocrotonate tautomerase (4-OT) and macrophage migration inhibitory factor (MIF), there is no significant sequence similarity among these protein families, and therefore, they are not combined in one hierarchy.
Probab=16.82 E-value=1.3e+02 Score=24.10 Aligned_cols=58 Identities=17% Similarity=0.231 Sum_probs=39.0
Q ss_pred cccccccccccccCCcccccCCCccCeeeEeeeccchhHHHhhhhhhhhccCCCCCCCCc
Q psy286 103 IGDFFSREKGQRVGKPQVKDCPNSEDILHLRYRWCSLEEEAQKKDICKSSKRGAPKSAGP 162 (284)
Q Consensus 103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~i~~~~~r~~~~~aGp 162 (284)
.+|.|+|--..... .+-|...+.+.+|+.++..+.-...||+.+++..-..+....++
T Consensus 36 ~~dik~r~~~~~~y--~~~~~~~~~~fi~i~i~l~~GRs~eqK~~l~~~i~~~l~~~~~~ 93 (113)
T cd00580 36 LGGIKVRAIRADHY--RVGDGDEDDAFIHVTLRILAGRSEEQKQELSEALLAALRAHLAP 93 (113)
T ss_pred hhccEEeeEEcceE--EECCCCCCCcEEEEEEEEcCCCCHHHHHHHHHHHHHHHHHhhhh
Confidence 45666555444433 44566668999999999888888889888777655544444443
Done!