Query 028482
Match_columns 208
No_of_seqs 119 out of 134
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 12:12:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028482.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028482hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05553 DUF761: Cotton fibre 99.1 6.6E-11 1.4E-15 77.9 2.4 28 180-207 2-29 (38)
2 KOG3446 NADH:ubiquinone oxidor 28.5 32 0.00069 27.0 1.2 36 157-201 11-46 (97)
3 PTZ00061 DNA-directed RNA poly 27.5 58 0.0012 28.8 2.8 29 11-39 5-36 (205)
4 PF13473 Cupredoxin_1: Cupredo 24.4 43 0.00093 25.0 1.3 14 78-91 83-96 (104)
5 PLN03111 DNA-directed RNA poly 23.7 72 0.0016 28.2 2.7 29 11-39 8-39 (206)
6 PF05584 Sulfolobus_pRN: Sulfo 18.2 45 0.00098 24.9 0.3 27 26-52 27-53 (72)
7 PF11563 Protoglobin: Protoglo 14.5 1.2E+02 0.0025 23.7 1.8 23 181-203 27-49 (158)
8 PF12770 CHAT: CHAT domain 14.4 1.3E+02 0.0028 25.5 2.2 17 184-200 235-251 (287)
9 cd00795 NOS_oxygenase_euk Nitr 14.3 1.3E+02 0.0028 29.3 2.3 20 181-200 53-72 (412)
10 cd07961 Anticodon_Ia_Ile_ABEc 14.0 1.4E+02 0.0029 24.3 2.1 13 10-22 13-25 (183)
No 1
>PF05553 DUF761: Cotton fibre expressed protein; InterPro: IPR008480 This family consists of several plant proteins of unknown function. Three of the sequences from Gossypium hirsutum (Upland cotton) in this family are described as G. hirsutum fibre expressed proteins []. The remaining sequences, found in Arabidopsis thaliana, are uncharacterised.
Probab=99.07 E-value=6.6e-11 Score=77.85 Aligned_cols=28 Identities=39% Similarity=0.583 Sum_probs=25.7
Q ss_pred chhhhHHHHHHHHHHHHHHhhhhhhhcC
Q 028482 180 SGYVDKAAEEFIQKFYKELKNQKRSMAD 207 (208)
Q Consensus 180 ~~~vD~~Ae~FI~~Fy~qlr~q~~~~~~ 207 (208)
+++||++||+||++||+|||+|++.|+.
T Consensus 2 ~~evd~rAe~FI~~f~~qlrlqr~~S~~ 29 (38)
T PF05553_consen 2 DDEVDRRAEEFIAKFREQLRLQRQESLQ 29 (38)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4689999999999999999999998864
No 2
>KOG3446 consensus NADH:ubiquinone oxidoreductase NDUFA2/B8 subunit [Energy production and conversion]
Probab=28.52 E-value=32 Score=26.96 Aligned_cols=36 Identities=28% Similarity=0.408 Sum_probs=21.8
Q ss_pred CCCccccccccCCCCCCCCCCCCchhhhHHHHHHHHHHHHHHhhh
Q 028482 157 RSPFVRPLRITDSPFPLKDTDDDSGYVDKAAEEFIQKFYKELKNQ 201 (208)
Q Consensus 157 rSP~vR~lRVtdSpf~~~de~~~~~~vD~~Ae~FI~~Fy~qlr~q 201 (208)
-++.+|.+||---+ - ...-+-..+||+|||..|+.-
T Consensus 11 ~~~~lkElRI~lcq-----k----spaSagvR~fvEk~Y~~lKka 46 (97)
T KOG3446|consen 11 FTLKLKELRIHLCQ-----K----SPASAGVREFVEKFYVNLKKA 46 (97)
T ss_pred cchhhhhheeeecC-----C----CCcchhHHHHHHHhhhhhhhc
Confidence 34557888875211 1 111223468999999999853
No 3
>PTZ00061 DNA-directed RNA polymerase; Provisional
Probab=27.53 E-value=58 Score=28.79 Aligned_cols=29 Identities=21% Similarity=0.360 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHH-hc--cCcchhhhchH
Q 028482 11 GKRIWSVVRVVFFMLR-KG--LCKRKLLVDLN 39 (208)
Q Consensus 11 aKRlW~vvR~v~fMlR-KG--isKrKLmmDl~ 39 (208)
..|||.+-|.++-|+| +| |+..-|-+.+.
T Consensus 5 ~~rl~r~rrTv~eMl~DRGY~V~~~el~~s~~ 36 (205)
T PTZ00061 5 ETRFFRCRRTCCEMLEDRGYIITSQEKLETFA 36 (205)
T ss_pred HHHHHHHHHHHHHHHhccCCccCHHHHcCCHH
Confidence 4599999999999999 77 66666666654
No 4
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=24.39 E-value=43 Score=24.99 Aligned_cols=14 Identities=43% Similarity=0.842 Sum_probs=8.5
Q ss_pred cCceeeeeeecCCC
Q 028482 78 AAQREYEFSCSNTP 91 (208)
Q Consensus 78 ~~~rEyEFSCSnTP 91 (208)
..++||||.|+-.|
T Consensus 83 ~~~G~y~~~C~~~~ 96 (104)
T PF13473_consen 83 LKPGEYEFYCTMHP 96 (104)
T ss_dssp -S-EEEEEB-SSS-
T ss_pred CCCEEEEEEcCCCC
Confidence 36899999999554
No 5
>PLN03111 DNA-directed RNA polymerase II subunit family protein; Provisional
Probab=23.66 E-value=72 Score=28.19 Aligned_cols=29 Identities=34% Similarity=0.587 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHH-hc--cCcchhhhchH
Q 028482 11 GKRIWSVVRVVFFMLR-KG--LCKRKLLVDLN 39 (208)
Q Consensus 11 aKRlW~vvR~v~fMlR-KG--isKrKLmmDl~ 39 (208)
..|||.+-|.++-|+| +| |+..-|-+.+.
T Consensus 8 ~~rl~r~rrTv~eMl~DRGY~V~~~el~~s~~ 39 (206)
T PLN03111 8 STRLYLVRRTVLEMLRDRGYLVSDSELNLTLS 39 (206)
T ss_pred HHHHHHHHHHHHHHHhccCCccCHHHHcCCHH
Confidence 5699999999999999 77 66666666553
No 6
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=18.18 E-value=45 Score=24.91 Aligned_cols=27 Identities=37% Similarity=0.489 Sum_probs=22.7
Q ss_pred HhccCcchhhhchHHHHhhhhhhhhhh
Q 028482 26 RKGLCKRKLLVDLNMMLKRGKIAGGKA 52 (208)
Q Consensus 26 RKGisKrKLmmDl~LmlKRgK~agkal 52 (208)
.-||+|..|.+-|+-|.++|.|-.+..
T Consensus 27 kTgi~k~~LlV~LsrL~k~GiI~Rkw~ 53 (72)
T PF05584_consen 27 KTGISKNTLLVYLSRLAKRGIIERKWR 53 (72)
T ss_pred HHCCCHHHHHHHHHHHHHCCCeeeeeE
Confidence 457899999999999999998766544
No 7
>PF11563 Protoglobin: Protoglobin; PDB: 2VEE_G 3QZZ_A 3R0G_A 3QZX_A 2VEB_A 1OR6_A 1OR4_B 2W31_B.
Probab=14.53 E-value=1.2e+02 Score=23.68 Aligned_cols=23 Identities=22% Similarity=0.410 Sum_probs=18.5
Q ss_pred hhhhHHHHHHHHHHHHHHhhhhh
Q 028482 181 GYVDKAAEEFIQKFYKELKNQKR 203 (208)
Q Consensus 181 ~~vD~~Ae~FI~~Fy~qlr~q~~ 203 (208)
+.+...+++|++.||+.|.....
T Consensus 27 ~~~~~~~~~iv~~FY~~l~~~pe 49 (158)
T PF11563_consen 27 PIIEPHAPEIVDDFYDHLLRFPE 49 (158)
T ss_dssp HHHHCTHHHHHHHHHHHHHTSHH
T ss_pred HHHHHHHHHHHHHHHHHHHCCHH
Confidence 46778899999999999876543
No 8
>PF12770 CHAT: CHAT domain
Probab=14.41 E-value=1.3e+02 Score=25.53 Aligned_cols=17 Identities=41% Similarity=0.886 Sum_probs=15.2
Q ss_pred hHHHHHHHHHHHHHHhh
Q 028482 184 DKAAEEFIQKFYKELKN 200 (208)
Q Consensus 184 D~~Ae~FI~~Fy~qlr~ 200 (208)
|..|-.|...||+.|..
T Consensus 235 d~~a~~f~~~fY~~L~~ 251 (287)
T PF12770_consen 235 DQAAARFMRRFYRALLQ 251 (287)
T ss_pred hHHHHHHHHHHHHhhhc
Confidence 67889999999999975
No 9
>cd00795 NOS_oxygenase_euk Nitric oxide synthase (NOS) eukaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an intermediate. In mammals, there are three distinct NOS isozymes: neuronal (nNOS or NOS-1), cytokine-inducible (iNOS or NOS-2) and endothelial (eNOS or NOS-3) . Nitric oxide synthases are homodimers. In eukaryotes, each monomer has an N-terminal oxygenase domain, which binds to the substrate L-Arg, zinc, and to the cofactors heme and 5.6.7.8-(6R)-tetrahydrobiopterin (BH4) . Eukaryotic NOS's also have a C-terminal electron supplying reductase region, which is homologous to cytochrome P450 reductase and binds NADH, FAD and FMN.
Probab=14.27 E-value=1.3e+02 Score=29.25 Aligned_cols=20 Identities=25% Similarity=0.542 Sum_probs=16.9
Q ss_pred hhhhHHHHHHHHHHHHHHhh
Q 028482 181 GYVDKAAEEFIQKFYKELKN 200 (208)
Q Consensus 181 ~~vD~~Ae~FI~~Fy~qlr~ 200 (208)
+++=.+|++||..||+.++.
T Consensus 53 e~l~~eA~~Fi~~~y~e~~~ 72 (412)
T cd00795 53 EELLPQAKDFINQYYSSIKR 72 (412)
T ss_pred HHHHHHHHHHHHHHHHhhcC
Confidence 45788999999999987763
No 10
>cd07961 Anticodon_Ia_Ile_ABEc Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases. This domain is found in isoleucyl tRNA synthetases (IleRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. This family includes bacterial, archaeal, and eukaryotic cytoplasmic members. IleRS catalyzes the transfer of isoleucine to the 3'-end of its tRNA.
Probab=13.97 E-value=1.4e+02 Score=24.30 Aligned_cols=13 Identities=15% Similarity=0.452 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHH
Q 028482 10 IGKRIWSVVRVVF 22 (208)
Q Consensus 10 vaKRlW~vvR~v~ 22 (208)
...|+||.+|.++
T Consensus 13 f~~KlwN~~rf~l 25 (183)
T cd07961 13 VLLPLWNAYRFFV 25 (183)
T ss_pred HHHHHHHHHHHHH
Confidence 5678999999875
Done!