Query 034787
Match_columns 83
No_of_seqs 133 out of 273
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 06:26:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034787.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034787hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3389 NADH:ubiquinone oxidor 99.8 1.5E-21 3.3E-26 143.2 3.6 63 21-83 41-107 (178)
2 PF04800 ETC_C1_NDUFA4: ETC co 99.5 1.1E-14 2.3E-19 99.0 3.3 32 52-83 1-32 (101)
3 PF08759 DUF1792: Domain of un 68.0 3.2 6.8E-05 32.1 1.5 28 38-65 123-153 (225)
4 TIGR03728 glyco_access_1 glyco 63.2 4.1 8.8E-05 32.3 1.3 28 38-65 141-171 (265)
5 PRK13031 preprotein translocas 33.5 18 0.00039 26.4 0.6 29 32-60 75-103 (149)
6 PLN02626 malate synthase 32.9 24 0.00052 30.6 1.3 39 40-81 79-122 (551)
7 TIGR01344 malate_syn_A malate 26.6 31 0.00067 29.5 0.9 38 40-80 55-97 (511)
8 PTZ00278 ARP2/3 complex subuni 24.5 27 0.00058 26.3 0.2 38 23-60 22-61 (174)
9 PRK09255 malate synthase; Vali 23.3 40 0.00088 28.9 1.0 38 40-80 76-118 (531)
10 cd00727 malate_synt_A Malate s 22.1 41 0.00089 28.7 0.8 39 39-80 54-97 (511)
No 1
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=99.83 E-value=1.5e-21 Score=143.18 Aligned_cols=63 Identities=57% Similarity=0.924 Sum_probs=56.7
Q ss_pred cccccccccc-ceec--ccCccccccCCcHHHhh-ceeeeecCCCCcccCCCCCCCCeEEeeecCCC
Q 034787 21 PFSRAFSADA-LVEV--KPGEIGMVSGIPEEHLR-RRVVIYTPARTATQQGSGKLGRWKINFMSTQK 83 (83)
Q Consensus 21 p~~r~fs~~~-~~~~--k~~e~~~vSG~P~e~~~-R~VrIy~Pak~AmQSG~~~t~~W~lefd~~~r 83 (83)
.+.|.|+.|+ +|+. |-.+++.|+|+|+||+. |+||||.|||++||||.+|+++|+||||..+|
T Consensus 41 rla~~~~~Dak~ve~d~kld~i~~v~GvPeeH~~sRkvrIf~PAR~~tQSg~gntkkWkiefd~r~r 107 (178)
T KOG3389|consen 41 RLARPFATDAKVVESDYKLDEIGKVSGVPEEHLDSRKVRIFSPARTATQSGSGNTKKWKIEFDSRLR 107 (178)
T ss_pred cccccccccceeEeehhhhcccccccCCChHHhcceeEEEecchhhhhhcccCCccceEEEecchhh
Confidence 3478999999 6653 56789999999999996 99999999999999999999999999999875
No 2
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=99.50 E-value=1.1e-14 Score=99.01 Aligned_cols=32 Identities=31% Similarity=0.728 Sum_probs=21.9
Q ss_pred ceeeeecCCCCcccCCCCCCCCeEEeeecCCC
Q 034787 52 RRVVIYTPARTATQQGSGKLGRWKINFMSTQK 83 (83)
Q Consensus 52 R~VrIy~Pak~AmQSG~~~t~~W~lefd~~~r 83 (83)
|+||||+|+|+|||||.+++++|+||||..+|
T Consensus 1 r~arIy~pak~amQSG~~~t~~W~lefe~~~~ 32 (101)
T PF04800_consen 1 RKARIYQPAKNAMQSGTANTKKWVLEFETRAR 32 (101)
T ss_dssp -EEEEE--SS--STTTT-SS--EEEEEEESSS
T ss_pred CeEEEeCCCCCCCCCCCCCCCCEEEeecCcCC
Confidence 78999999999999999999999999996543
No 3
>PF08759 DUF1792: Domain of unknown function (DUF1792); InterPro: IPR014869 This domain is found at the C terminus of proteins such as Q97P75 from SWISSPROT that also contain the glycosyl transferase domain at the N terminus. Sometimes it is found independently.
Probab=67.97 E-value=3.2 Score=32.06 Aligned_cols=28 Identities=18% Similarity=0.292 Sum_probs=23.2
Q ss_pred ccccccCCcHHHhh--cee-eeecCCCCccc
Q 034787 38 EIGMVSGIPEEHLR--RRV-VIYTPARTATQ 65 (83)
Q Consensus 38 e~~~vSG~P~e~~~--R~V-rIy~Pak~AmQ 65 (83)
....-+|+--++.. +.| |||.|+|||-+
T Consensus 123 G~~sR~GvgnDLFdnaksI~rIicPsknAf~ 153 (225)
T PF08759_consen 123 GEKSRSGVGNDLFDNAKSIKRIICPSKNAFS 153 (225)
T ss_pred cCCeecCCCchhhhCccceEEEECCchhhHH
Confidence 45667899999996 777 99999999954
No 4
>TIGR03728 glyco_access_1 glycosyltransferase, SP_1767 family. Members of this protein family are putative glycosyltransferases. Some members are found close to genes for the accessory secretory (SecA2) system, and are suggested by Partial Phylogenetic Profiling to correlate with SecA2 systems. Glycosylation, therefore, may occur in the cytosol prior to secretion.
Probab=63.24 E-value=4.1 Score=32.26 Aligned_cols=28 Identities=18% Similarity=0.292 Sum_probs=22.9
Q ss_pred ccccccCCcHHHhh--cee-eeecCCCCccc
Q 034787 38 EIGMVSGIPEEHLR--RRV-VIYTPARTATQ 65 (83)
Q Consensus 38 e~~~vSG~P~e~~~--R~V-rIy~Pak~AmQ 65 (83)
....-+|+--++.. +.+ |||.|+|+|-+
T Consensus 141 G~~sR~GvGndLF~naksI~rIicPsknAy~ 171 (265)
T TIGR03728 141 GETSRSGVGNDLFDNAKSIKRIICPSKNAFS 171 (265)
T ss_pred cccccccCchhhhhCcccEEEEeCCChhHHH
Confidence 45566889999996 777 99999999964
No 5
>PRK13031 preprotein translocase subunit SecB; Provisional
Probab=33.54 E-value=18 Score=26.43 Aligned_cols=29 Identities=24% Similarity=0.357 Sum_probs=22.8
Q ss_pred eecccCccccccCCcHHHhhceeeeecCC
Q 034787 32 VEVKPGEIGMVSGIPEEHLRRRVVIYTPA 60 (83)
Q Consensus 32 ~~~k~~e~~~vSG~P~e~~~R~VrIy~Pa 60 (83)
+|.+-..+=.+.|+|+|++....-||.|.
T Consensus 75 vEv~qaGIF~i~nipee~~~~~L~i~CP~ 103 (149)
T PRK13031 75 AEVKQAGIFTVANMQEAQIEHAKKAFCPN 103 (149)
T ss_pred EEEeEeeEEEEcCCCHHHHHHHHhcCCcc
Confidence 34444456678899999999988999985
No 6
>PLN02626 malate synthase
Probab=32.88 E-value=24 Score=30.57 Aligned_cols=39 Identities=23% Similarity=0.304 Sum_probs=31.5
Q ss_pred ccccCCcHHHhhceeeeecCC-----CCcccCCCCCCCCeEEeeecC
Q 034787 40 GMVSGIPEEHLRRRVVIYTPA-----RTATQQGSGKLGRWKINFMST 81 (83)
Q Consensus 40 ~~vSG~P~e~~~R~VrIy~Pa-----k~AmQSG~~~t~~W~lefd~~ 81 (83)
=.|..+|+++..|+|-|--|. -||+-||. +.|..|||..
T Consensus 79 W~va~~p~~L~dRrvEItgP~drkm~inalNSga---~~~maDfEDs 122 (551)
T PLN02626 79 WRCAPVPPAVADRRVEITGPVERKMVINALNSGA---KVFMADFEDS 122 (551)
T ss_pred CeeCCCChhhccceeeecCCCcHHHHHHHHcCCC---CEEEecCCcc
Confidence 567899999999999999886 37777775 4689998753
No 7
>TIGR01344 malate_syn_A malate synthase A. This model represents plant malate synthase and one of two bacterial forms, designated malate synthase A. The distantly related malate synthase G is described by a separate model. This enzyme and isocitrate lyase are the two characteristic enzymes of the glyoxylate shunt. The shunt enables the cell to use acetyl-CoA to generate increased levels of TCA cycle intermediates for biosynthetic pathways such as gluconeogenesis.
Probab=26.57 E-value=31 Score=29.47 Aligned_cols=38 Identities=26% Similarity=0.373 Sum_probs=29.1
Q ss_pred ccccCCcHHHhhceeeeecCCCC-----cccCCCCCCCCeEEeeec
Q 034787 40 GMVSGIPEEHLRRRVVIYTPART-----ATQQGSGKLGRWKINFMS 80 (83)
Q Consensus 40 ~~vSG~P~e~~~R~VrIy~Pak~-----AmQSG~~~t~~W~lefd~ 80 (83)
=.|..+|+++..|+|-||-|.-. |..||- +.|.+|||.
T Consensus 55 W~va~~p~~l~~RRveitgP~d~km~inAlnsga---d~~m~D~ED 97 (511)
T TIGR01344 55 WTIAPIPPDLQDRRVEITGPVDRKMVINALNAGA---KVFMADFED 97 (511)
T ss_pred CccCCCChhhcCCeeEEeCCCCHHHHHHHhcCCC---CEEEeCccc
Confidence 56789999999999999999843 334543 468888874
No 8
>PTZ00278 ARP2/3 complex subunit; Provisional
Probab=24.47 E-value=27 Score=26.35 Aligned_cols=38 Identities=13% Similarity=0.202 Sum_probs=27.2
Q ss_pred ccccccccceecccCcccc--ccCCcHHHhhceeeeecCC
Q 034787 23 SRAFSADALVEVKPGEIGM--VSGIPEEHLRRRVVIYTPA 60 (83)
Q Consensus 23 ~r~fs~~~~~~~k~~e~~~--vSG~P~e~~~R~VrIy~Pa 60 (83)
.+.|+++.+-....+|+++ .+|-+.|++--.+.|++-.
T Consensus 22 L~nF~Sq~vErhnkPEVE~~~~~~ts~elLl~pl~I~Rne 61 (174)
T PTZ00278 22 LGNFPSQIIERHNKPEVELNGYEGKSKELVLNPIYIVRSE 61 (174)
T ss_pred HhcCchHHHhccCCCcEEecCCCCCCHHHhcCcEEEEEcC
Confidence 6899998875543334444 6788899988888888743
No 9
>PRK09255 malate synthase; Validated
Probab=23.31 E-value=40 Score=28.90 Aligned_cols=38 Identities=29% Similarity=0.383 Sum_probs=29.2
Q ss_pred ccccCCcHHHhhceeeeecCCC-----CcccCCCCCCCCeEEeeec
Q 034787 40 GMVSGIPEEHLRRRVVIYTPAR-----TATQQGSGKLGRWKINFMS 80 (83)
Q Consensus 40 ~~vSG~P~e~~~R~VrIy~Pak-----~AmQSG~~~t~~W~lefd~ 80 (83)
=.|..+|.++..|+|-||-|.- +|..||- +.|.+|||.
T Consensus 76 W~va~~p~~l~~RRveitgP~~~km~~nAlnsga---d~~m~D~ED 118 (531)
T PRK09255 76 WKVAPIPADLQDRRVEITGPVDRKMVINALNSGA---KVFMADFED 118 (531)
T ss_pred CeeCCCChhhcCCeeEEeCCCCHHHHHHHhcCCC---CEEEecccc
Confidence 4677999999999999999975 3344543 468888875
No 10
>cd00727 malate_synt_A Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA, which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their carbon requirements from two-carbon compounds, by bypassing the two carboxylation steps of the citric acid cycle.
Probab=22.11 E-value=41 Score=28.72 Aligned_cols=39 Identities=26% Similarity=0.323 Sum_probs=29.8
Q ss_pred cccccCCcHHHhhceeeeecCCCC-----cccCCCCCCCCeEEeeec
Q 034787 39 IGMVSGIPEEHLRRRVVIYTPART-----ATQQGSGKLGRWKINFMS 80 (83)
Q Consensus 39 ~~~vSG~P~e~~~R~VrIy~Pak~-----AmQSG~~~t~~W~lefd~ 80 (83)
-=.|..+|+++..|+|-||-|.-. |..||- +.|.+|||.
T Consensus 54 ~W~va~~p~~l~~RRveitgP~~~km~~nAlnsgA---d~~m~D~ED 97 (511)
T cd00727 54 DWKVAPVPPDLQDRRVEITGPVDRKMVINALNSGA---KVFMADFED 97 (511)
T ss_pred CCccCCCChhhcCceeEEeCCCCHHHHHHHhcCCC---CEEEeCccc
Confidence 356788999999999999999753 445553 468888875
Done!