Query psy10682
Match_columns 71
No_of_seqs 113 out of 543
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 15:57:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10682.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10682hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1221|consensus 99.9 6.5E-27 1.4E-31 178.1 6.2 68 2-69 234-301 (467)
2 PLN02503 fatty acyl-CoA reduct 99.8 7.1E-20 1.5E-24 142.7 4.7 64 2-65 376-439 (605)
3 PLN02996 fatty acyl-CoA reduct 99.5 2.9E-14 6.4E-19 108.0 3.3 63 2-64 262-324 (491)
4 PF07993 NAD_binding_4: Male s 97.8 4.1E-06 8.9E-11 57.7 0.4 48 10-57 201-249 (249)
5 PF14475 Mso1_Sec1_bdg: Sec1-b 66.1 2.6 5.7E-05 22.8 0.5 8 9-16 34-41 (41)
6 PF07755 DUF1611: Protein of u 46.0 11 0.00025 27.9 1.2 35 20-65 149-183 (301)
7 PTZ00374 dihydroxyacetone phos 42.4 13 0.00027 32.3 1.0 40 25-64 236-276 (1108)
8 PF06200 tify: tify domain; I 33.4 52 0.0011 17.1 2.2 29 32-60 6-34 (36)
9 PF02169 LPP20: LPP20 lipoprot 26.4 43 0.00093 19.2 1.3 22 13-34 1-22 (92)
10 COG4549 Uncharacterized protei 22.5 46 0.001 23.2 1.0 14 4-17 64-77 (178)
11 PF08992 QH-AmDH_gamma: Quinoh 21.8 44 0.00095 20.4 0.7 14 13-26 12-26 (78)
No 1
>KOG1221|consensus
Probab=99.93 E-value=6.5e-27 Score=178.07 Aligned_cols=68 Identities=40% Similarity=0.870 Sum_probs=65.4
Q ss_pred ceeeeeccCCccccccCCCccceeeecceeceEEEEEeCCccccceehhhHhHHHHHHHHhhhhcccc
Q psy10682 2 SQVTPAWREPLPGWVDNLNGPTGILVAGAKGVIRTMLCNGDYHAEVIPVDMAINGLIVIGYKIGSSQR 69 (71)
Q Consensus 2 SIV~~t~~EP~pGWidn~~g~~gl~~~~g~G~lr~~~~~~~~~~DiVPVD~vvn~iI~aa~~~~~~~~ 69 (71)
|||+||++||+|||+||++||+|+++|+|+|++|.+++|++.++|+||||||+|++|+++|+++...+
T Consensus 234 siI~st~~EP~pGWidn~~gp~g~i~g~gkGvlr~~~~d~~~~adiIPvD~vvN~~ia~~~~~~~~~~ 301 (467)
T KOG1221|consen 234 SIITSTYKEPFPGWIDNLNGPDGVIIGYGKGVLRCFLVDPKAVADIIPVDMVVNAMIASAWQHAGNSK 301 (467)
T ss_pred CceeccccCCCCCccccCCCCceEEEEeccceEEEEEEccccccceeeHHHHHHHHHHHHHHHhccCC
Confidence 89999999999999999999999999999999999999999999999999999999999998876643
No 2
>PLN02503 fatty acyl-CoA reductase 2
Probab=99.79 E-value=7.1e-20 Score=142.65 Aligned_cols=64 Identities=27% Similarity=0.554 Sum_probs=56.5
Q ss_pred ceeeeeccCCccccccCCCccceeeecceeceEEEEEeCCccccceehhhHhHHHHHHHHhhhh
Q psy10682 2 SQVTPAWREPLPGWVDNLNGPTGILVAGAKGVIRTMLCNGDYHAEVIPVDMAINGLIVIGYKIG 65 (71)
Q Consensus 2 SIV~~t~~EP~pGWidn~~g~~gl~~~~g~G~lr~~~~~~~~~~DiVPVD~vvn~iI~aa~~~~ 65 (71)
|||++|++||+|||+||.+...++++.+|+|++|.+++|+++++|+||||+|+|++|+++|...
T Consensus 376 siV~st~~eP~pGw~d~~~~~~p~~~~~g~G~lr~~~~~~~~~~DiVPVD~vvna~i~a~a~~~ 439 (605)
T PLN02503 376 SVIESTWKDPFPGWMEGNRMMDPIVLYYGKGQLTGFLADPNGVLDVVPADMVVNATLAAMAKHG 439 (605)
T ss_pred CEecccccCCccccccCccccchhhhheeccceeEEEeCCCeeEeEEeecHHHHHHHHHHHhhh
Confidence 8999999999999999966555555666899999999999999999999999999999966533
No 3
>PLN02996 fatty acyl-CoA reductase
Probab=99.46 E-value=2.9e-14 Score=108.01 Aligned_cols=63 Identities=30% Similarity=0.627 Sum_probs=60.9
Q ss_pred ceeeeeccCCccccccCCCccceeeecceeceEEEEEeCCccccceehhhHhHHHHHHHHhhh
Q psy10682 2 SQVTPAWREPLPGWVDNLNGPTGILVAGAKGVIRTMLCNGDYHAEVIPVDMAINGLIVIGYKI 64 (71)
Q Consensus 2 SIV~~t~~EP~pGWidn~~g~~gl~~~~g~G~lr~~~~~~~~~~DiVPVD~vvn~iI~aa~~~ 64 (71)
|+|.++++||+|||+|+++++.+++.++++|.++.+++|.+...|+||||.|+|++++++|+.
T Consensus 262 ~~V~G~~~~p~~gwi~~~~~~~~i~~~~~~g~~~~~~gdg~~~~D~v~Vddvv~a~l~a~~~~ 324 (491)
T PLN02996 262 TMITSTYKEPFPGWIEGLRTIDSVIVGYGKGKLTCFLADPNSVLDVIPADMVVNAMIVAMAAH 324 (491)
T ss_pred CEeccCCcCCCCCcccchhhHHHHHHHhccceEeEEecCCCeecceecccHHHHHHHHHHHHh
Confidence 789999999999999999999999999999999999999999999999999999999999974
No 4
>PF07993 NAD_binding_4: Male sterility protein; InterPro: IPR013120 This family represents the C-terminal NAD-binding region of the male sterility protein from Arabidopsis and Drosophila. A sequence-related jojoba acyl CoA reductase is also included.; PDB: 4DQV_A.
Probab=97.84 E-value=4.1e-06 Score=57.72 Aligned_cols=48 Identities=19% Similarity=0.323 Sum_probs=35.1
Q ss_pred CCccccccCCC-ccceeeecceeceEEEEEeCCccccceehhhHhHHHH
Q psy10682 10 EPLPGWVDNLN-GPTGILVAGAKGVIRTMLCNGDYHAEVIPVDMAINGL 57 (71)
Q Consensus 10 EP~pGWidn~~-g~~gl~~~~g~G~lr~~~~~~~~~~DiVPVD~vvn~i 57 (71)
+|..||.++.. ++..+.....+|.++.++.+++...|++|||+|+++|
T Consensus 201 ~~~~G~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~d~vPVD~va~aI 249 (249)
T PF07993_consen 201 DSRTGWWNSDDFFPYLLRSCIALGAFPDLPGDPDARLDLVPVDYVARAI 249 (249)
T ss_dssp SSSSS---TTBHHHHHHHHHHHH-EEES-SB---TT--EEEHHHHHHHH
T ss_pred cCCCceeeccchHHHHHHHHHHcCCcccccCCCCceEeEECHHHHHhhC
Confidence 89999999998 8888889999999999999999999999999999976
No 5
>PF14475 Mso1_Sec1_bdg: Sec1-binding region of Mso1
Probab=66.11 E-value=2.6 Score=22.84 Aligned_cols=8 Identities=50% Similarity=1.630 Sum_probs=6.7
Q ss_pred cCCccccc
Q psy10682 9 REPLPGWV 16 (71)
Q Consensus 9 ~EP~pGWi 16 (71)
..|||+|+
T Consensus 34 ~~~~P~WL 41 (41)
T PF14475_consen 34 GRPFPGWL 41 (41)
T ss_pred CCCCCCcC
Confidence 57999996
No 6
>PF07755 DUF1611: Protein of unknown function (DUF1611); InterPro: IPR011669 This entry contains a number of hypothetical bacterial and archaeal proteins. The region is approximately 350 residues long. A member of this family (Q6M063 from SWISSPROT) is thought to associate with another subunit to form an H+-transporting ATPase, but no evidence has been found to support this.; PDB: 2G0T_A 2OBN_A.
Probab=46.04 E-value=11 Score=27.86 Aligned_cols=35 Identities=23% Similarity=0.462 Sum_probs=25.3
Q ss_pred CccceeeecceeceEEEEEeCCccccceehhhHhHHHHHHHHhhhh
Q psy10682 20 NGPTGILVAGAKGVIRTMLCNGDYHAEVIPVDMAINGLIVIGYKIG 65 (71)
Q Consensus 20 ~g~~gl~~~~g~G~lr~~~~~~~~~~DiVPVD~vvn~iI~aa~~~~ 65 (71)
.|.||++. .+.|+ ..|-||.|+++-++=.+.++..
T Consensus 149 TGQTGimi-a~~Gv----------~iDav~~DFvaGavE~~v~~~~ 183 (301)
T PF07755_consen 149 TGQTGIMI-AGYGV----------PIDAVPSDFVAGAVEALVPEAA 183 (301)
T ss_dssp -SHHHHHC-HSEC------------GGGSBGGGHHHHHHHHHHHHC
T ss_pred cCCceEEE-ecCCe----------eccchhhhhHHHHHHHHHHhhC
Confidence 47788888 88887 8899999999988655555544
No 7
>PTZ00374 dihydroxyacetone phosphate acyltransferase; Provisional
Probab=42.40 E-value=13 Score=32.31 Aligned_cols=40 Identities=23% Similarity=0.298 Sum_probs=33.3
Q ss_pred eeecceeceEEEEEeCCccccceehhhHhHHH-HHHHHhhh
Q psy10682 25 ILVAGAKGVIRTMLCNGDYHAEVIPVDMAING-LIVIGYKI 64 (71)
Q Consensus 25 l~~~~g~G~lr~~~~~~~~~~DiVPVD~vvn~-iI~aa~~~ 64 (71)
+.+|..+|.+|.++...--.+-+.|+|...|+ +++--|..
T Consensus 236 ~~~~~a~g~~~~~p~~~~~p~~~~p~d~a~~~a~~~~~~~~ 276 (1108)
T PTZ00374 236 VCLGVALGTVKHLPVGFRDPATVTPLDVALNTALLAVLLLC 276 (1108)
T ss_pred HHHHHhhhhhhcccccCCCCceeccHHHHHHHHHHHHHHHh
Confidence 45888999999999999999999999999998 55555543
No 8
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=33.44 E-value=52 Score=17.09 Aligned_cols=29 Identities=10% Similarity=0.092 Sum_probs=22.9
Q ss_pred ceEEEEEeCCccccceehhhHhHHHHHHH
Q psy10682 32 GVIRTMLCNGDYHAEVIPVDMAINGLIVI 60 (71)
Q Consensus 32 G~lr~~~~~~~~~~DiVPVD~vvn~iI~a 60 (71)
--|..||...=++.|-||.|-+-..|..+
T Consensus 6 ~qLTIfY~G~V~Vfd~v~~~Ka~~im~lA 34 (36)
T PF06200_consen 6 AQLTIFYGGQVCVFDDVPPDKAQEIMLLA 34 (36)
T ss_pred CcEEEEECCEEEEeCCCCHHHHHHHHHHh
Confidence 34678888888899999999887766554
No 9
>PF02169 LPP20: LPP20 lipoprotein; InterPro: IPR002217 A major antigen has been recognised in Helicobacter pylori, a protein with an apparent molecular weight of 20,000 and mass 18,283 kDa []. DNA sequence analysis revealed a 525 bp gene, encoding a 175-amino acid residue product with a typical 21-residue lipoprotein signal peptide and consensus prolipoprotein processing site []. Results of experimental work with Lpp20 are consistent with it being a nonessential lipoprotein []. Prokaryotic membrane lipoproteins are synthesised with precursor signal peptides that are cleaved by specific peptidases (signal peptidase II). The enzyme recognises a conserved sequence, cutting upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [].; GO: 0009279 cell outer membrane
Probab=26.45 E-value=43 Score=19.22 Aligned_cols=22 Identities=27% Similarity=0.436 Sum_probs=18.0
Q ss_pred cccccCCCccceeeecceeceE
Q psy10682 13 PGWVDNLNGPTGILVAGAKGVI 34 (71)
Q Consensus 13 pGWidn~~g~~gl~~~~g~G~l 34 (71)
|-|....+-....+.|.|.|--
T Consensus 1 P~W~~~~~~~~~~l~a~G~~~~ 22 (92)
T PF02169_consen 1 PDWVNSPPPSQQYLYAVGSGSS 22 (92)
T ss_pred CCCCCCCCCCccEEEEEEcccC
Confidence 7788888888888999988853
No 10
>COG4549 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.54 E-value=46 Score=23.18 Aligned_cols=14 Identities=43% Similarity=0.681 Sum_probs=10.4
Q ss_pred eeeeccCCcccccc
Q psy10682 4 VTPAWREPLPGWVD 17 (71)
Q Consensus 4 V~~t~~EP~pGWid 17 (71)
|...--||.|||.=
T Consensus 64 vi~~kp~PkpGW~l 77 (178)
T COG4549 64 VIFAKPQPKPGWTL 77 (178)
T ss_pred eeeecccCCCCcEE
Confidence 44566799999964
No 11
>PF08992 QH-AmDH_gamma: Quinohemoprotein amine dehydrogenase, gamma subunit; InterPro: IPR015084 Quinohemoprotein amine dehydrogenases (QHNDH) 1.4.99 from EC) are enzymes produced in the periplasmic space of certain Gram-negative bacteria, such as Paracoccus denitrificans and Pseudomonas putida, in response to primary amines, including n-butylamine and benzylamine. QHNDH catalyses the oxidative deamination of a wide range of aliphatic and aromatic amines through formation of a Schiff-base intermediate involving one of the quinone O atoms []. Catalysis requires the presence of a novel redox cofactor, cysteine tryptophylquinone (CTQ). CTQ is derived from the post-translational modification of specific residues, which involves the oxidation of the indole ring of a tryptophan residue to form tryptophylquinone, followed by covalent cross-linking with a cysteine residue []. There is one CTQ per subunit in QHNDH. In addition to CTQ, two haem c cofactors are present in QHNDH that mediate the transfer of the substrate-derived electrons from CTQ to an external electron acceptor, cytochrome c-550 [, ]. QHNDH is a heterotrimer of alpha, beta and gamma subunits. The alpha and beta subunits contain signal peptides necessary for the translocation of QHNDH to the periplasm. The alpha subunit is composed of four domains - domain 1 forming a dihaem cytochrome, and domains 2-4 forming antiparallel beta-barrel structures; the beta subunit is a 7-bladed beta-propeller that provides part of the active site; and the small, catalytic gamma subunit contains the novel cross-linked CTQ cofactor, in addition to additional thioester cross-links between Cys and Asp/Glu residues that encage CTQ. The gamma subunit assumes a globular secondary structure with two short alpha-helices having many turns and bends []. This entry represents the main structural domain of the QHNDH gamma subunit.; GO: 0016638 oxidoreductase activity, acting on the CH-NH2 group of donors, 0055114 oxidation-reduction process; PDB: 1JJU_C 1PBY_C 1JMX_G 1JMZ_G.
Probab=21.84 E-value=44 Score=20.36 Aligned_cols=14 Identities=43% Similarity=1.087 Sum_probs=9.3
Q ss_pred ccc-ccCCCccceee
Q psy10682 13 PGW-VDNLNGPTGIL 26 (71)
Q Consensus 13 pGW-idn~~g~~gl~ 26 (71)
||| +|.+.|..+++
T Consensus 12 PGWEvD~fGG~a~LC 26 (78)
T PF08992_consen 12 PGWEVDAFGGVASLC 26 (78)
T ss_dssp SBSSSBTTSSSTTS-
T ss_pred CCceecCCccHhhcc
Confidence 788 67777766654
Done!