Query 037730
Match_columns 83
No_of_seqs 102 out of 115
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:49:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037730.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037730hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00165 hypothetical protein; 100.0 3.6E-48 7.9E-53 256.3 4.5 83 1-83 1-84 (88)
2 PF12609 DUF3774: Wound-induce 100.0 2.3E-38 4.9E-43 204.8 2.1 74 10-83 1-76 (79)
3 PF02284 COX5A: Cytochrome c o 27.9 55 0.0012 22.6 2.2 27 10-36 61-90 (108)
4 TIGR02894 DNA_bind_RsfA transc 21.9 53 0.0012 24.1 1.3 14 24-37 45-60 (161)
5 PF00751 DM: DM DNA binding do 19.9 39 0.00084 19.9 0.2 16 15-30 12-28 (47)
6 PF02083 Urotensin_II: Urotens 18.7 39 0.00086 15.0 0.0 7 25-31 5-11 (12)
7 KOG1066 Glucosidase II catalyt 18.5 41 0.00088 30.5 0.1 7 25-31 363-369 (915)
8 PRK13426 F0F1 ATP synthase sub 18.0 89 0.0019 23.8 1.8 19 22-40 84-104 (291)
9 COG3205 Predicted membrane pro 17.6 99 0.0021 20.0 1.7 20 4-23 22-41 (72)
10 KOG3851 Sulfide:quinone oxidor 17.2 84 0.0018 26.3 1.6 25 15-40 152-176 (446)
No 1
>PLN00165 hypothetical protein; Provisional
Probab=100.00 E-value=3.6e-48 Score=256.26 Aligned_cols=83 Identities=67% Similarity=0.921 Sum_probs=76.0
Q ss_pred CCcchhHHHHHHHHHHHHhhcccCcccchhhHHHHHHHHHHhhhhHHhhhccchh-hHHhhcccccccchhhhhhhhhhh
Q 037730 1 MSAKGKAWMVAASVGAVEALKDQGFVRRNYSLRFLKQRAETNLRSMVQANKLSLS-SAMALSKVRDDKMNESVESLRKVM 79 (83)
Q Consensus 1 Ms~~~~~w~vAaSvgaVEalKDQG~CRwn~alrSl~~~ak~~~~S~sqa~~ls~s-sa~~~~~~~~~k~kqaEEsLRtVM 79 (83)
||+++++|||||||||||+|||||+|||||+|||||||+++|++|++|+++|+++ ++.++...+++|.||+||+|||||
T Consensus 1 Ms~~~r~w~vAaSvgaVEalkDQG~cRwny~lrS~~~~a~~~~~s~s~~~~lss~~~~~~s~~~~~~k~kq~EEsLRtVM 80 (88)
T PLN00165 1 MSHMGKAWIVAASVGAVEALKDQGFCRWNYTLRSIHQHAKNNLRSFSQAKKLSSSSSAMVSSRVREEKAKQSEESLRTVM 80 (88)
T ss_pred CccchhHHHHHHHHHHHhhccccCeeehhhHHHHHHHHHHhccccccccccCCCcchhhhhhhhccccccchHHhhheee
Confidence 8999999999999999999999999999999999999999999999999999764 334445567788999999999999
Q ss_pred cccC
Q 037730 80 YSSC 83 (83)
Q Consensus 80 yLSC 83 (83)
||||
T Consensus 81 yLSC 84 (88)
T PLN00165 81 YLSC 84 (88)
T ss_pred Eecc
Confidence 9999
No 2
>PF12609 DUF3774: Wound-induced protein; InterPro: IPR022251 This family of proteins is found in eukaryotes. Proteins in this family are typically between 81 and 97 amino acids in length. The proteins in the family are often annotated as wound-induced proteins however there is little accompanying literature to confirm this.
Probab=100.00 E-value=2.3e-38 Score=204.76 Aligned_cols=74 Identities=55% Similarity=0.728 Sum_probs=65.6
Q ss_pred HHHHHHHHHhhccc-CcccchhhHHHHHHHHHHhh-hhHHhhhccchhhHHhhcccccccchhhhhhhhhhhcccC
Q 037730 10 VAASVGAVEALKDQ-GFVRRNYSLRFLKQRAETNL-RSMVQANKLSLSSAMALSKVRDDKMNESVESLRKVMYSSC 83 (83)
Q Consensus 10 vAaSvgaVEalKDQ-G~CRwn~alrSl~~~ak~~~-~S~sqa~~ls~ssa~~~~~~~~~k~kqaEEsLRtVMyLSC 83 (83)
||+||||||+|||| |+|||||+|||+|+++++++ ++.+|+++++++++.......+++.||+||||||||||||
T Consensus 1 vAasvgavealKDq~g~crwn~alrs~~~~a~~~~~~s~~~~~~~~ss~~~~~~~~~~~~~k~aEEsLRtVMyLSC 76 (79)
T PF12609_consen 1 VAASVGAVEALKDQAGLCRWNYALRSLHQHAKANVRGSASQAKRLSSSSSSSSAAAEEEKRKQAEESLRTVMYLSC 76 (79)
T ss_pred CchhHHHHhccccccccccccHHHHHHHHHhhhccccccccccccCcccccccccccccccchhhhhhceeEEEec
Confidence 68999999999999 99999999999999999998 8889999987643322445677899999999999999999
No 3
>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....
Probab=27.89 E-value=55 Score=22.64 Aligned_cols=27 Identities=37% Similarity=0.479 Sum_probs=19.0
Q ss_pred HHHHHHHHHhhccc-Cccc--chhhHHHHH
Q 037730 10 VAASVGAVEALKDQ-GFVR--RNYSLRFLK 36 (83)
Q Consensus 10 vAaSvgaVEalKDQ-G~CR--wn~alrSl~ 36 (83)
.|..|...|++||. |... |.|-|.-|.
T Consensus 61 ~a~AVR~lE~iK~K~~~~~~~Y~~~lqElk 90 (108)
T PF02284_consen 61 FALAVRILEGIKDKCGNKKEIYPYILQELK 90 (108)
T ss_dssp HHHHHHHHHHHHHHTTT-TTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHccChHHHHHHHHHHHh
Confidence 47889999999998 7665 555554444
No 4
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=21.87 E-value=53 Score=24.06 Aligned_cols=14 Identities=21% Similarity=0.055 Sum_probs=10.1
Q ss_pred Ccc--cchhhHHHHHH
Q 037730 24 GFV--RRNYSLRFLKQ 37 (83)
Q Consensus 24 G~C--Rwn~alrSl~~ 37 (83)
.-| |||..+|-=++
T Consensus 45 AACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 45 AACGFRWNAYVRKQYE 60 (161)
T ss_pred HHhcchHHHHHHHHHH
Confidence 457 99999985443
No 5
>PF00751 DM: DM DNA binding domain; InterPro: IPR001275 This domain was first discovered in the doublesex proteins of Drosophila melanogaster and is also seen in proteins from Caenorhabditis elegans []. In D. melanogaster the doublesex gene controls somatic sexual differentiation by producing alternatively spliced mRNAs encoding related sex-specific polypeptides []. These proteins are believed to function as transcription factors on downstream sex-determination genes, especially on neuroblast differentiation and yolk protein genes transcription [, ]. The DM domain binds DNA as a dimer, allowing the recognition of pseudopalindromic sequences [, , ]. The NMR analysis of the DSX DM domain [] revealed a novel zinc module containing 'intertwined' CCHC and HCCC zinc-binding sites. The recognition of the DNA requires the carboxy-terminal basic tail which contacts the minor groove of the target sequence.; GO: 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0007548 sex differentiation, 0005634 nucleus; PDB: 1LPV_A.
Probab=19.87 E-value=39 Score=19.89 Aligned_cols=16 Identities=19% Similarity=0.297 Sum_probs=8.8
Q ss_pred HHHHhhccc-Ccccchh
Q 037730 15 GAVEALKDQ-GFVRRNY 30 (83)
Q Consensus 15 gaVEalKDQ-G~CRwn~ 30 (83)
|.+..||++ ..|+|..
T Consensus 12 G~~~~lKgHk~~C~~~~ 28 (47)
T PF00751_consen 12 GVIVPLKGHKRYCPFRD 28 (47)
T ss_dssp T---TTTT-GGG-TTTT
T ss_pred CcccchhhhccccCcCC
Confidence 556788999 7999973
No 6
>PF02083 Urotensin_II: Urotensin II; InterPro: IPR001483 Urotensin II, a small peptide that contains a disulphide bridge, was originally isolated from the caudal portion of the spinal cord of teleost and elasmobranch fish []. The peptide has also been found in the brain of frogs []. Urotensin II seems to be involved in smooth muscle stimulation.; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=18.72 E-value=39 Score=15.03 Aligned_cols=7 Identities=14% Similarity=0.003 Sum_probs=5.1
Q ss_pred cccchhh
Q 037730 25 FVRRNYS 31 (83)
Q Consensus 25 ~CRwn~a 31 (83)
-|-|+|-
T Consensus 5 ~CFWKYC 11 (12)
T PF02083_consen 5 ECFWKYC 11 (12)
T ss_pred chhhhhc
Confidence 4889873
No 7
>KOG1066 consensus Glucosidase II catalytic (alpha) subunit and related enzymes, glycosyl hydrolase family 31 [Carbohydrate transport and metabolism; Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones]
Probab=18.51 E-value=41 Score=30.49 Aligned_cols=7 Identities=43% Similarity=0.620 Sum_probs=5.5
Q ss_pred cccchhh
Q 037730 25 FVRRNYS 31 (83)
Q Consensus 25 ~CRwn~a 31 (83)
-|||||.
T Consensus 363 QcRWNY~ 369 (915)
T KOG1066|consen 363 QCRWNYN 369 (915)
T ss_pred hcccccc
Confidence 3999986
No 8
>PRK13426 F0F1 ATP synthase subunit gamma; Provisional
Probab=18.04 E-value=89 Score=23.78 Aligned_cols=19 Identities=16% Similarity=0.233 Sum_probs=13.2
Q ss_pred ccCcc-cchhh-HHHHHHHHH
Q 037730 22 DQGFV-RRNYS-LRFLKQRAE 40 (83)
Q Consensus 22 DQG~C-Rwn~a-lrSl~~~ak 40 (83)
|+|+| ..|+. +|.+.++.+
T Consensus 84 DrGLcG~fN~~v~~~~~~~~~ 104 (291)
T PRK13426 84 NTSLCGGFNANIIKLLLQTIG 104 (291)
T ss_pred CCcccchhhHHHHHHHHHHHH
Confidence 99999 78866 466665543
No 9
>COG3205 Predicted membrane protein [Function unknown]
Probab=17.60 E-value=99 Score=20.02 Aligned_cols=20 Identities=20% Similarity=0.147 Sum_probs=16.3
Q ss_pred chhHHHHHHHHHHHHhhccc
Q 037730 4 KGKAWMVAASVGAVEALKDQ 23 (83)
Q Consensus 4 ~~~~w~vAaSvgaVEalKDQ 23 (83)
..+.|.|+.-||+||.+-..
T Consensus 22 lTG~~~v~~~ialvep~~nT 41 (72)
T COG3205 22 LTGSIGVAGLIALVEPMVNT 41 (72)
T ss_pred hhhhHhhhHHHHHHHhhhcc
Confidence 35789999999999998544
No 10
>KOG3851 consensus Sulfide:quinone oxidoreductase/flavo-binding protein [Energy production and conversion]
Probab=17.19 E-value=84 Score=26.33 Aligned_cols=25 Identities=36% Similarity=0.610 Sum_probs=20.4
Q ss_pred HHHHhhcccCcccchhhHHHHHHHHH
Q 037730 15 GAVEALKDQGFVRRNYSLRFLKQRAE 40 (83)
Q Consensus 15 gaVEalKDQG~CRwn~alrSl~~~ak 40 (83)
|+||||-+.|+| -||.-+-+..+=+
T Consensus 152 Gl~Eal~tP~Vc-SnYSpkyvdk~y~ 176 (446)
T KOG3851|consen 152 GLVEALDTPGVC-SNYSPKYVDKVYK 176 (446)
T ss_pred ChHhhccCCCcc-cccChHHHHHHHH
Confidence 799999999999 5888877776644
Done!