Query 034333
Match_columns 97
No_of_seqs 69 out of 71
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 12:19:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034333.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034333hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02862 DDHD: DDHD domain; I 99.6 8.3E-16 1.8E-20 112.1 2.9 36 1-36 192-227 (227)
2 KOG2308 Phosphatidic acid-pref 98.9 5.1E-10 1.1E-14 99.0 2.9 42 1-42 691-735 (741)
3 KOG2308 Phosphatidic acid-pref 70.6 0.79 1.7E-05 41.8 -1.5 75 4-81 657-735 (741)
4 PF09393 DUF2001: Protein of u 63.6 1.9 4.1E-05 31.1 -0.4 18 64-81 122-139 (142)
5 PF04800 ETC_C1_NDUFA4: ETC co 57.4 8.6 0.00019 27.0 2.0 36 54-89 32-67 (101)
6 KOG3389 NADH:ubiquinone oxidor 35.3 35 0.00077 26.6 2.5 35 55-89 108-143 (178)
7 cd06885 PX_SNX17_31 The phosph 30.9 33 0.00071 23.1 1.5 26 8-33 78-103 (104)
8 KOG1760 Molecular chaperone Pr 30.5 35 0.00076 25.6 1.7 20 70-89 9-28 (131)
9 KOG0777 Geranylgeranyl pyropho 23.7 42 0.0009 28.2 1.1 29 5-33 289-318 (322)
10 PRK09750 hypothetical protein; 23.5 41 0.00089 22.6 0.9 25 54-90 12-36 (64)
11 TIGR02057 PAPS_reductase phosp 23.2 1.2E+02 0.0027 22.9 3.5 46 18-64 165-217 (226)
12 cd07284 PX_SNX7 The phosphoino 23.0 53 0.0012 22.8 1.4 23 8-30 91-113 (116)
13 cd06865 PX_SNX_like The phosph 21.1 59 0.0013 22.3 1.3 23 8-30 95-117 (120)
14 cd00837 EVH1 EVH1 (Enabled, Va 20.5 86 0.0019 21.0 2.0 32 57-92 71-102 (104)
15 PF05923 APC_crr: APC cysteine 20.4 36 0.00079 18.7 0.1 19 67-85 6-24 (26)
No 1
>PF02862 DDHD: DDHD domain; InterPro: IPR004177 The DDHD domain is 180 residues long and contains four conserved residues that may form a metal binding site. The domain is named after these four residues. This pattern of conservation of metal binding residues is often seen in phosphoesterase domains. This domain is found in retinal degeneration B proteins, as well as a family of probable phospholipases.; GO: 0046872 metal ion binding
Probab=99.58 E-value=8.3e-16 Score=112.09 Aligned_cols=36 Identities=53% Similarity=1.003 Sum_probs=35.0
Q ss_pred CCCccccchhHHHhhhhhhccccchhHHHHHHHHhh
Q 034333 1 MQDKTFEHPYLQAIGSHTNYWRDEDTALFILKHLYR 36 (97)
Q Consensus 1 LQE~~~En~YL~AltSHt~YW~s~DtALFILk~lY~ 36 (97)
|||+.+||+||+||+||++||+|.|||+|||++||+
T Consensus 192 Lq~~~~~~~yl~~l~sH~sYW~s~Dva~Fil~~l~~ 227 (227)
T PF02862_consen 192 LQEGVLENSYLSALTSHFSYWESKDVALFILKQLYR 227 (227)
T ss_pred cCCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHhC
Confidence 799999999999999999999999999999999985
No 2
>KOG2308 consensus Phosphatidic acid-preferring phospholipase A1, contains DDHD domain [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=98.92 E-value=5.1e-10 Score=98.96 Aligned_cols=42 Identities=43% Similarity=0.821 Sum_probs=40.2
Q ss_pred CCCcccc--c-hhHHHhhhhhhccccchhHHHHHHHHhhcCCCCC
Q 034333 1 MQDKTFE--H-PYLQAIGSHTNYWRDEDTALFILKHLYRDIPEDP 42 (97)
Q Consensus 1 LQE~~~E--n-~YL~AltSHt~YW~s~DtALFILk~lY~~~~~~p 42 (97)
+||+++| | +||+|++||+|||.|+|+|+|+|++||.++++.+
T Consensus 691 ~~e~~~e~~~~eylsa~sshs~yW~s~d~a~fl~~e~y~~~~~s~ 735 (741)
T KOG2308|consen 691 FQEAPIESSNLEYLSALSSHSEYWSSEDLALFLLTELYRSFGISN 735 (741)
T ss_pred ccccchhhhhHHHHhhhcccccceecchhHHHHHHHHHHhccccc
Confidence 6999999 8 9999999999999999999999999999998876
No 3
>KOG2308 consensus Phosphatidic acid-preferring phospholipase A1, contains DDHD domain [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=70.57 E-value=0.79 Score=41.76 Aligned_cols=75 Identities=23% Similarity=0.080 Sum_probs=60.3
Q ss_pred ccccchhHHHhhhhhhccccchhHHHHHHHHhhcCCCCCCCCCCCCC--CCCCCCCCccccccccccc--ccccccccch
Q 034333 4 KTFEHPYLQAIGSHTNYWRDEDTALFILKHLYRDIPEDPNSPMESGG--DNSKGESGSTGWSDQREYA--EEELPLTFSD 79 (97)
Q Consensus 4 ~~~En~YL~AltSHt~YW~s~DtALFILk~lY~~~~~~p~~~~e~~~--~~~k~~~~~~~~~~~r~~~--~ee~pltfsd 79 (97)
+.++.+| .++|..+|..-|..+++|...++...+-+..+.|+.+ -.++.++.+--|++.+.+. .+|++.||.+
T Consensus 657 k~~~~~~---~~a~~~~~~~~~~~lg~Ln~~~r~d~~~~e~~~e~~~~eylsa~sshs~yW~s~d~a~fl~~e~y~~~~~ 733 (741)
T KOG2308|consen 657 KAVKKPD---GTASDPRMTPSDLRLGFLNATSRLDYVFQEAPIESSNLEYLSALSSHSEYWSSEDLALFLLTELYRSFGI 733 (741)
T ss_pred hhhcCCc---ccccChhhccccchhhhhcccccccccccccchhhhhHHHHhhhcccccceecchhHHHHHHHHHHhccc
Confidence 3455676 7899999999999999999999988887777777776 4568888899999876543 7888888876
Q ss_pred HH
Q 034333 80 RA 81 (97)
Q Consensus 80 ~~ 81 (97)
..
T Consensus 734 s~ 735 (741)
T KOG2308|consen 734 SN 735 (741)
T ss_pred cc
Confidence 54
No 4
>PF09393 DUF2001: Protein of unknown function (DUF2001); InterPro: IPR018989 This entry represents XkdM from bacteriophage phiCD119, a temperate phage isolated form a pathogenic Clostridium difficile strain. The virus has an icosahedral capsid and a contractile tail covered by a sheath and contains a double-stranded DNA genome. It belongs to the Myoviridae family of the tailed phages and the order Caudovirales. The genome was circularly permuted. The DNA sequence of this phage consists of 53,325 bp, which carries 79 putative open reading frames (ORFs), 23 of which could be assigned a function [].; PDB: 2GUJ_A.
Probab=63.63 E-value=1.9 Score=31.07 Aligned_cols=18 Identities=44% Similarity=0.722 Sum_probs=6.6
Q ss_pred ccccccccccccccchHH
Q 034333 64 DQREYAEEELPLTFSDRA 81 (97)
Q Consensus 64 ~~r~~~~ee~pltfsd~~ 81 (97)
+..+.++||+|+||+|-.
T Consensus 122 e~~~~~eee~~FtF~d~e 139 (142)
T PF09393_consen 122 EAGEVIEEEIPFTFEDYE 139 (142)
T ss_dssp --------EEEE--SEEE
T ss_pred eCCCceEEEeccEEcccc
Confidence 445888999999999843
No 5
>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=57.40 E-value=8.6 Score=26.98 Aligned_cols=36 Identities=17% Similarity=0.411 Sum_probs=25.8
Q ss_pred CCCCCcccccccccccccccccccchHHHHHHHHHH
Q 034333 54 KGESGSTGWSDQREYAEEELPLTFSDRAVVRSFSRR 89 (97)
Q Consensus 54 k~~~~~~~~~~~r~~~~ee~pltfsd~~~~~~fs~~ 89 (97)
+-+..-+||.-..|+....+.|.|.+++.+-.|+.+
T Consensus 32 ~~~~PLMGWtss~D~~~q~v~l~F~skE~Ai~yaer 67 (101)
T PF04800_consen 32 RWENPLMGWTSSGDPLSQSVRLKFDSKEDAIAYAER 67 (101)
T ss_dssp S---TTT-SSSS--SEEE-CEEEESSHHHHHHHHHH
T ss_pred CcCCCccCCCCCCChhhCeeEeeeCCHHHHHHHHHH
Confidence 345567999999999877899999999999999875
No 6
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=35.33 E-value=35 Score=26.61 Aligned_cols=35 Identities=20% Similarity=0.441 Sum_probs=29.5
Q ss_pred CCCCccccccccccc-ccccccccchHHHHHHHHHH
Q 034333 55 GESGSTGWSDQREYA-EEELPLTFSDRAVVRSFSRR 89 (97)
Q Consensus 55 ~~~~~~~~~~~r~~~-~ee~pltfsd~~~~~~fs~~ 89 (97)
=|+.-+||..--||. +--+.|+|+.++.+++|+.|
T Consensus 108 WENPLMGWtsTaDPlsNvgm~L~F~tkEdA~sFaEk 143 (178)
T KOG3389|consen 108 WENPLMGWTSTADPLSNVGMALAFDTKEDAKSFAEK 143 (178)
T ss_pred ccCccccccccCCcccccceeeeeccHHHHHHHHHH
Confidence 356678999988887 44699999999999999976
No 7
>cd06885 PX_SNX17_31 The phosphoinositide binding Phox Homology domain of Sorting Nexins 17 and 31. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Members of this subfamily include sorting nexin 17 (SNX17), SNX31, and similar proteins. They contain an N-terminal PX domain followed by a truncated FERM (4.1, ezrin, radixin, and moesin) domain and a unique C-terminal region. SNXs make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX17 is known to regulate the trafficking and processing of a number of proteins. It binds some me
Probab=30.87 E-value=33 Score=23.11 Aligned_cols=26 Identities=23% Similarity=0.285 Sum_probs=23.4
Q ss_pred chhHHHhhhhhhccccchhHHHHHHH
Q 034333 8 HPYLQAIGSHTNYWRDEDTALFILKH 33 (97)
Q Consensus 8 n~YL~AltSHt~YW~s~DtALFILk~ 33 (97)
+.||..|..|--.+.|.++..|+...
T Consensus 78 e~yL~~l~~~~~l~~s~~~~~FL~~~ 103 (104)
T cd06885 78 EKYLQAVVQDPRIANSDIFNSFLLNA 103 (104)
T ss_pred HHHHHHHhcChhhccCHHHHHHHHhc
Confidence 68999999999999999999998753
No 8
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=30.50 E-value=35 Score=25.62 Aligned_cols=20 Identities=35% Similarity=0.627 Sum_probs=18.4
Q ss_pred ccccccccchHHHHHHHHHH
Q 034333 70 EEELPLTFSDRAVVRSFSRR 89 (97)
Q Consensus 70 ~ee~pltfsd~~~~~~fs~~ 89 (97)
-|+++.||-|.+-|..|||.
T Consensus 9 ~e~v~Vt~EDQq~iN~Fsrl 28 (131)
T KOG1760|consen 9 PEDVKVTFEDQQNINEFSRL 28 (131)
T ss_pred cccCcccHHHHHHHHHHHHH
Confidence 68899999999999999985
No 9
>KOG0777 consensus Geranylgeranyl pyrophosphate synthase/Polyprenyl synthetase [Coenzyme transport and metabolism]
Probab=23.65 E-value=42 Score=28.23 Aligned_cols=29 Identities=31% Similarity=0.545 Sum_probs=21.7
Q ss_pred cccchhHHHhhhhhhccccchhHH-HHHHH
Q 034333 5 TFEHPYLQAIGSHTNYWRDEDTAL-FILKH 33 (97)
Q Consensus 5 ~~En~YL~AltSHt~YW~s~DtAL-FILk~ 33 (97)
.-||+||-+|.+|..=|.+.|-++ .|.-+
T Consensus 289 ~g~Npyl~~L~~hl~~~~~~~~e~l~~~~~ 318 (322)
T KOG0777|consen 289 DGENPYLPDLASHLDTATNLHDELLYIIDH 318 (322)
T ss_pred cCCCcchHHHHHHHHhhhccchhHHHHhhh
Confidence 346999999999999998766554 44433
No 10
>PRK09750 hypothetical protein; Provisional
Probab=23.48 E-value=41 Score=22.58 Aligned_cols=25 Identities=20% Similarity=0.429 Sum_probs=18.1
Q ss_pred CCCCCcccccccccccccccccccchHHHHHHHHHHH
Q 034333 54 KGESGSTGWSDQREYAEEELPLTFSDRAVVRSFSRRA 90 (97)
Q Consensus 54 k~~~~~~~~~~~r~~~~ee~pltfsd~~~~~~fs~~~ 90 (97)
|+.++|+.|+- |||..|.++=++|.
T Consensus 12 KpGg~P~~W~r------------~s~~~mtk~ECeK~ 36 (64)
T PRK09750 12 KEGGTPTNWTR------------YSKSKLTKSECEKM 36 (64)
T ss_pred CCCCCccceeE------------ecCCcCCHHHHHHH
Confidence 67788999986 67777766655553
No 11
>TIGR02057 PAPS_reductase phosphoadenosine phosphosulfate reductase, thioredoxin dependent. Requiring thioredoxin as an electron donor, phosphoadenosine phosphosulfate reductase catalyzes the reduction of 3'-phosphoadenylylsulfate (PAPS) to sulfite and phospho-adenosine-phosphate (PAP). Found in enterobacteria, cyanobacteria, and yeast, PAPS reductase is related to a group of plant (TIGR00424) and bacterial (TIGR02055) enzymes preferring 5'-adenylylsulfate (APS) over PAPS as a substrate for reduction to sulfite.
Probab=23.20 E-value=1.2e+02 Score=22.91 Aligned_cols=46 Identities=13% Similarity=0.159 Sum_probs=27.2
Q ss_pred hhccccchhHHHHHHH------HhhcCCCCCCCCCCCCCCCCC-CCCCcccccc
Q 034333 18 TNYWRDEDTALFILKH------LYRDIPEDPNSPMESGGDNSK-GESGSTGWSD 64 (97)
Q Consensus 18 t~YW~s~DtALFILk~------lY~~~~~~p~~~~e~~~~~~k-~~~~~~~~~~ 64 (97)
+.+|+..||-.+|.++ ||. .|-.+..+.-.+..-.- ...++++|..
T Consensus 165 i~~Wt~~dVw~Yi~~~~lP~npLY~-~GY~siGc~~cT~~v~~~~~~R~gRw~~ 217 (226)
T TIGR02057 165 LIDWTFEQVYQYLDAHNVPYNPLLD-QGYRSIGDYHSTRKVKEGEDERAGRWKG 217 (226)
T ss_pred hhhCCHHHHHHHHHHcCCCCCchhh-cCCCCCCCCCcCCCCCCCCCccCccCCC
Confidence 5799999999999864 552 33344444334432221 2236788853
No 12
>cd07284 PX_SNX7 The phosphoinositide binding Phox Homology domain of Sorting Nexin 7. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX7 harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature, C-terminal to the PX domain, similar to the sorting nexins SNX1-2, SNX4-6, SNX8, SNX30,
Probab=22.98 E-value=53 Score=22.80 Aligned_cols=23 Identities=30% Similarity=0.580 Sum_probs=21.1
Q ss_pred chhHHHhhhhhhccccchhHHHH
Q 034333 8 HPYLQAIGSHTNYWRDEDTALFI 30 (97)
Q Consensus 8 n~YL~AltSHt~YW~s~DtALFI 30 (97)
+.||..|..|-..|.|.++-.|+
T Consensus 91 e~FL~ri~~hp~L~~s~~~~~FL 113 (116)
T cd07284 91 HKFLNRIADHPTLTFNEDFKIFL 113 (116)
T ss_pred HHHHHHHHcCcccccChHHHHhh
Confidence 67999999999999999998886
No 13
>cd06865 PX_SNX_like The phosphoinositide binding Phox Homology domain of SNX-like proteins. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. This subfamily is composed of uncharacterized proteins, predominantly from plants, with similarity to sorting nexins. A few members show a similar domain architectu
Probab=21.12 E-value=59 Score=22.29 Aligned_cols=23 Identities=17% Similarity=0.417 Sum_probs=20.8
Q ss_pred chhHHHhhhhhhccccchhHHHH
Q 034333 8 HPYLQAIGSHTNYWRDEDTALFI 30 (97)
Q Consensus 8 n~YL~AltSHt~YW~s~DtALFI 30 (97)
+.||..|.+|-..++|+++-.|+
T Consensus 95 e~fL~~i~~~p~l~~s~~~~~FL 117 (120)
T cd06865 95 EKYLNRLAAHPVIGLSDELRVFL 117 (120)
T ss_pred HHHHHHHHcCceeecCcHHHHhc
Confidence 57999999999999999998886
No 14
>cd00837 EVH1 EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. The EVH1 domain binds to other proteins at proline rich sequences in either FPPPP or PPXXF motifs. It is found in the cytoskeletal reorganization proteins Enabled VASP, and WASP, and in the synaptic scaffolding protein Homer. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=20.46 E-value=86 Score=21.02 Aligned_cols=32 Identities=16% Similarity=0.295 Sum_probs=25.3
Q ss_pred CCcccccccccccccccccccchHHHHHHHHHHHHH
Q 034333 57 SGSTGWSDQREYAEEELPLTFSDRAVVRSFSRRAKK 92 (97)
Q Consensus 57 ~~~~~~~~~r~~~~ee~pltfsd~~~~~~fs~~~k~ 92 (97)
..++.|-+. +--.-|+|.+..-++.|.+++++
T Consensus 71 ~~Fh~w~~~----~~~~GL~F~se~eA~~F~~~v~~ 102 (104)
T cd00837 71 PFFHQWEDD----NCVYGLNFASEEEAAQFRKKVLE 102 (104)
T ss_pred CeEEEEEcC----CcEEEEeeCCHHHHHHHHHHHHh
Confidence 457777765 33578999999999999998764
No 15
>PF05923 APC_crr: APC cysteine-rich region; InterPro: IPR009223 This short region is found repeated in the mid region of the adenomatous polyposis proteins (APCs). In the human protein many cancer-linked SNPs are found near the first three occurrences of the motif. These repeats bind beta-catenin [].; GO: 0016055 Wnt receptor signaling pathway; PDB: 1T08_C 1TH1_C 1V18_B.
Probab=20.37 E-value=36 Score=18.68 Aligned_cols=19 Identities=32% Similarity=0.539 Sum_probs=1.8
Q ss_pred cccccccccccchHHHHHH
Q 034333 67 EYAEEELPLTFSDRAVVRS 85 (97)
Q Consensus 67 ~~~~ee~pltfsd~~~~~~ 85 (97)
....|+.|.-||......+
T Consensus 6 ~~~vE~TP~~fS~~sSlSs 24 (26)
T PF05923_consen 6 KYCVEDTPACFSRASSLSS 24 (26)
T ss_dssp ----SS-------------
T ss_pred cceecCCCccccccccccC
Confidence 3457999999998764433
Done!