Query 033311
Match_columns 122
No_of_seqs 106 out of 213
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 20:37:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033311.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/033311hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3cx5_G Cytochrome B-C1 complex 100.0 2.6E-49 8.9E-54 292.2 11.3 105 5-116 20-124 (126)
2 1pp9_F Ubiquinol-cytochrome C 100.0 2.5E-48 8.6E-53 281.5 9.4 100 6-113 10-109 (110)
3 2klz_A Ataxin-3; UIM, ubiquiti 38.1 11 0.00036 23.6 0.9 34 43-77 6-41 (52)
4 1q0v_A Hydrophilic protein; ha 22.3 25 0.00087 23.6 0.7 42 66-107 15-71 (81)
5 1gng_X Frattide, glycogen synt 21.6 22 0.00074 21.0 0.2 11 45-55 24-34 (39)
6 1tty_A Sigma-A, RNA polymerase 18.3 97 0.0033 19.2 2.8 24 43-68 8-31 (87)
7 4afj_X Proto-oncogene FRAT1; t 18.3 42 0.0014 18.7 0.9 11 45-55 15-25 (30)
8 4ayb_K DNA-directed RNA polyme 15.9 1.8E+02 0.0062 19.8 3.9 46 31-81 1-52 (95)
9 2lqo_A Putative glutaredoxin R 12.5 92 0.0032 20.1 1.6 30 21-51 17-46 (92)
10 1rp3_A RNA polymerase sigma fa 12.4 1.3E+02 0.0045 20.9 2.5 21 11-31 67-87 (239)
No 1
>3cx5_G Cytochrome B-C1 complex subunit 7; complex III, electron transfer complex, cytochrome BC1 complex, mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces cerevisiae} SCOP: f.27.1.1 PDB: 1kyo_G* 3cxh_G* 2ibz_F* 1ezv_F* 1kb9_G* 1p84_G*
Probab=100.00 E-value=2.6e-49 Score=292.25 Aligned_cols=105 Identities=26% Similarity=0.383 Sum_probs=99.9
Q ss_pred HHHhhchhhHHHHHHHHHHhhhHHhhhccccccCCCCCCChHHHHHHhcCCHHHHHHHHHHHHHHHhhhccccCCChhhh
Q 033311 5 LQSLLDPKKNWLAAQHMKTISKRLRNFGLRYDDLYDPYYDLDIKEALDRLPREIVDARNQRLKRAMDLSMKHEYLPEDLQ 84 (122)
Q Consensus 5 L~k~~~P~~~~~a~~y~~~~g~~yrk~GL~yDDl~~e~e~~~V~eALrRLP~~~~~~R~~Ri~RA~qlS~~h~~LPkeqw 84 (122)
|+++++| +++||+|++| ||||||+||||++| ++++|+|||+|||+++.++|+|||+||+|||++|++||||||
T Consensus 20 l~~~~~p----~~~w~~~~~g--~rk~GL~~DDl~~e-~~~~v~eAL~RLP~~~~~~R~~Ri~RA~~ls~~~~~LPke~w 92 (126)
T 3cx5_G 20 LSKLCVP----VANQFINLAG--YKKLGLKFDDLIAE-ENPIMQTALRRLPEDESYARAYRIIRAHQTELTHHLLPRNEW 92 (126)
T ss_dssp HHHHHHH----HHHHHHHHHC--GGGGTCCGGGGSCC-CSHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHTTCCCCGGGS
T ss_pred HHHHHHH----HHHHHHHHHH--HHhccccHHhccCC-CCHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhccCCHHHc
Confidence 5566666 8999999976 99999999999999 899999999999999999999999999999999999999999
Q ss_pred hcccCCcchhHHHHHHHHHHHHHHHHhCCCCc
Q 033311 85 AMQTPFRNYLQDMLALVKREKAEREALGALPL 116 (122)
Q Consensus 85 tk~eed~~YL~P~i~eV~~E~~Er~~~d~~~~ 116 (122)
||+++|++||+|||+||++|++||++||++.+
T Consensus 93 tk~e~d~~YL~p~i~ev~~E~~Er~~ld~~~v 124 (126)
T 3cx5_G 93 IKAQEDVPYLLPYILEAEAAAKEKDELDNIEV 124 (126)
T ss_dssp CCGGGCCCSSHHHHHHHHHHHHHHHHHHTCCC
T ss_pred cCCCcchHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 99999999999999999999999999999875
No 2
>1pp9_F Ubiquinol-cytochrome C reductase complex 14 kDa P; cytochrome BC1, membrane protein, heme protein, rieske iron protein, cytochrome B, complex III; HET: BHG HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: f.27.1.1 PDB: 1bgy_F* 1be3_F* 1l0n_F* 1ntk_F* 1ntm_F* 1ntz_F* 1nu1_F* 1l0l_F* 1ppj_F* 1sqb_F* 1sqq_F* 1sqv_F* 1sqx_F* 2a06_F* 2fyu_F* 2ybb_F* 1sqp_F* 1qcr_F* 1bcc_F* 2bcc_F* ...
Probab=100.00 E-value=2.5e-48 Score=281.50 Aligned_cols=100 Identities=33% Similarity=0.492 Sum_probs=94.3
Q ss_pred HHhhchhhHHHHHHHHHHhhhHHhhhccccccCCCCCCChHHHHHHhcCCHHHHHHHHHHHHHHHhhhccccCCChhhhh
Q 033311 6 QSLLDPKKNWLAAQHMKTISKRLRNFGLRYDDLYDPYYDLDIKEALDRLPREIVDARNQRLKRAMDLSMKHEYLPEDLQA 85 (122)
Q Consensus 6 ~k~~~P~~~~~a~~y~~~~g~~yrk~GL~yDDl~~e~e~~~V~eALrRLP~~~~~~R~~Ri~RA~qlS~~h~~LPkeqwt 85 (122)
.+++.| +++||+|++| ||||||+||||++| +++|+|||+|||+++.++|+|||+||+|||++|++||+||||
T Consensus 10 ~~~~~~----~~~w~~n~sg--~rk~GL~~DDl~~e--~~~v~eAL~RLP~~~~~~R~~Ri~RA~~ls~~~~~LPke~wt 81 (110)
T 1pp9_F 10 SRWLEG----IRKWYYNAAG--FNKLGLMRDDTIHE--NDDVKEAIRRLPENLYDDRVFRIKRALDLSMRQQILPKEQWT 81 (110)
T ss_dssp --CHHH----HHHHHHHHHC--GGGGTCCGGGGSCC--CHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHTTCCCCGGGSC
T ss_pred HHHHHH----HHHHHHHHHH--HHHhcccHHhccCC--CHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhcccCCHHHcc
Confidence 455666 9999999987 99999999999998 689999999999999999999999999999999999999999
Q ss_pred cccCCcchhHHHHHHHHHHHHHHHHhCC
Q 033311 86 MQTPFRNYLQDMLALVKREKAEREALGA 113 (122)
Q Consensus 86 k~eed~~YL~P~i~eV~~E~~Er~~~d~ 113 (122)
|+++|++||+|||+||++|++||++||+
T Consensus 82 k~e~d~~YL~p~i~ev~~E~~Er~~~d~ 109 (110)
T 1pp9_F 82 KYEEDKSYLEPYLKEVIRERKEREEWAK 109 (110)
T ss_dssp CGGGCCCSSHHHHHHHHHHHHHHHHHHH
T ss_pred CCccchHHHHHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999999999999986
No 3
>2klz_A Ataxin-3; UIM, ubiquitin-binding, hydrolase, neurodegenerati nucleus, phosphoprotein, spinocerebellar ataxia, transcript transcription regulation; NMR {Homo sapiens}
Probab=38.09 E-value=11 Score=23.63 Aligned_cols=34 Identities=35% Similarity=0.560 Sum_probs=20.2
Q ss_pred CChHHHHHHhcCCHHHHH--HHHHHHHHHHhhhcccc
Q 033311 43 YDLDIKEALDRLPREIVD--ARNQRLKRAMDLSMKHE 77 (122)
Q Consensus 43 e~~~V~eALrRLP~~~~~--~R~~Ri~RA~qlS~~h~ 77 (122)
..++.|+||. |+.++.+ +----++||+||||+-.
T Consensus 6 DEedlqrALa-lSRQE~dmEDeeadLrrAiqLSmQGs 41 (52)
T 2klz_A 6 DEEDLQRALA-LSRQEIDMEDEEADLRRAIQLSMQGS 41 (52)
T ss_dssp HHHHHHHHHH-HHHHHHCCSSSHHHHHHHHHHHHTTC
T ss_pred chHHHHHHHH-HHHHHhccchhHHHHHHHHHHHhhcc
Confidence 3467888874 2332221 11224789999999843
No 4
>1q0v_A Hydrophilic protein; has cysteine rich putative zinc finger esential for function;...; stable, non-interacting alpha-helices; NMR {Saccharomyces cerevisiae} SCOP: j.105.1.1 PDB: 1q0w_A
Probab=22.33 E-value=25 Score=23.63 Aligned_cols=42 Identities=24% Similarity=0.320 Sum_probs=24.0
Q ss_pred HHHHHhhhccc--------cCCChhh-------hhcccCCcchhHHHHHHHHHHHHH
Q 033311 66 LKRAMDLSMKH--------EYLPEDL-------QAMQTPFRNYLQDMLALVKREKAE 107 (122)
Q Consensus 66 i~RA~qlS~~h--------~~LPkeq-------wtk~eed~~YL~P~i~eV~~E~~E 107 (122)
|+||++||++- .+.|... .+..+++.+=|.--|.-=-++..+
T Consensus 15 LkrAieLSL~Es~~~~~~~~yvp~~~~~~~~~~~~~~edeD~DLKAAIaASLrd~E~ 71 (81)
T 1q0v_A 15 IRKAIELSLKESRNSASSEPIVPVVESKNEVKRQEIEEEEDPDLKAAIQESLREAEE 71 (81)
T ss_dssp HHHHHHHHHHCCCCCSCCCCCCCCCCCCCCCCCCCCCCCSCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHHcCCCCCCCCCCCCCCCCCCCCCCCCcccCHHHHHHHHHHHHHHHH
Confidence 89999999963 3565321 011144556666666655555544
No 5
>1gng_X Frattide, glycogen synthase kinase-3 beta; transferase, protein kinase, GSK3/frattide complex, phosphorylated, active; HET: PTR; 2.6A {Homo sapiens}
Probab=21.61 E-value=22 Score=21.00 Aligned_cols=11 Identities=55% Similarity=0.465 Sum_probs=8.7
Q ss_pred hHHHHHHhcCC
Q 033311 45 LDIKEALDRLP 55 (122)
Q Consensus 45 ~~V~eALrRLP 55 (122)
--|+||++||-
T Consensus 24 ~LIkEAVrRlq 34 (39)
T 1gng_X 24 NLIKEAVRRLH 34 (39)
T ss_dssp CHHHHHHHHHH
T ss_pred cHHHHHHHHHH
Confidence 45899999974
No 6
>1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2
Probab=18.29 E-value=97 Score=19.22 Aligned_cols=24 Identities=13% Similarity=0.185 Sum_probs=16.0
Q ss_pred CChHHHHHHhcCCHHHHHHHHHHHHH
Q 033311 43 YDLDIKEALDRLPREIVDARNQRLKR 68 (122)
Q Consensus 43 e~~~V~eALrRLP~~~~~~R~~Ri~R 68 (122)
....+.+||..||+.+. .+++++.
T Consensus 8 ~~~~l~~~l~~L~~~er--~vl~l~~ 31 (87)
T 1tty_A 8 MREELEKVLKTLSPREA--MVLRMRY 31 (87)
T ss_dssp CCSHHHHHHTTSCHHHH--HHHHHHH
T ss_pred HHHHHHHHHHhCCHHHH--HHHHHHH
Confidence 34678899999998754 3444443
No 7
>4afj_X Proto-oncogene FRAT1; transferase-peptide complex, kinase; HET: PTR SJJ; 1.98A {Homo sapiens} PDB: 3zrk_X* 3zrl_X* 3zrm_X*
Probab=18.28 E-value=42 Score=18.73 Aligned_cols=11 Identities=55% Similarity=0.465 Sum_probs=8.8
Q ss_pred hHHHHHHhcCC
Q 033311 45 LDIKEALDRLP 55 (122)
Q Consensus 45 ~~V~eALrRLP 55 (122)
--++||++||-
T Consensus 15 ~likeAvrrl~ 25 (30)
T 4afj_X 15 NLIKEAVRRLH 25 (30)
T ss_dssp CHHHHHHHHTC
T ss_pred chHHHHHHHHH
Confidence 46799999985
No 8
>4ayb_K DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_I 4b1o_K 4b1p_I 2waq_K 2wb1_I 2pmz_K 3hkz_K
Probab=15.85 E-value=1.8e+02 Score=19.81 Aligned_cols=46 Identities=28% Similarity=0.473 Sum_probs=22.5
Q ss_pred hccccccCCCCCCChHHHHHH-----hcCCHHHHHHHHHHH-HHHHhhhccccCCCh
Q 033311 31 FGLRYDDLYDPYYDLDIKEAL-----DRLPREIVDARNQRL-KRAMDLSMKHEYLPE 81 (122)
Q Consensus 31 ~GL~yDDl~~e~e~~~V~eAL-----rRLP~~~~~~R~~Ri-~RA~qlS~~h~~LPk 81 (122)
|||..|+++.+ +-.+.+.. .+|.. |+|.+=| .||.|+|+-...+=+
T Consensus 1 ~~~~~dg~i~~--~l~~~~~~~~~~~~kLTK---YEkaRIiG~RA~Qis~GA~~~I~ 52 (95)
T 4ayb_K 1 MGLERDGILSQ--DLHFNEVFVSLWQNKLTR---YEIARVISARALQLAMGAPALID 52 (95)
T ss_dssp ----------C--CSHHHHHHHHHHTSSCCH---HHHHHHHHHHHHHHHTCCCCSSC
T ss_pred CCccccCeecc--hhhccchhhhcccccccH---HHHHHHHHHHHHHHHCCCCceEe
Confidence 57888888876 44555554 35664 4454433 599999998887643
No 9
>2lqo_A Putative glutaredoxin RV3198.1/MT3292; TRX fold, oxidoreductase; NMR {Mycobacterium tuberculosis}
Probab=12.49 E-value=92 Score=20.07 Aligned_cols=30 Identities=13% Similarity=0.114 Sum_probs=20.7
Q ss_pred HHHhhhHHhhhccccccCCCCCCChHHHHHH
Q 033311 21 MKTISKRLRNFGLRYDDLYDPYYDLDIKEAL 51 (122)
Q Consensus 21 ~~~~g~~yrk~GL~yDDl~~e~e~~~V~eAL 51 (122)
+..+-+-+.+.|+.|..+-.+ +|++..+.+
T Consensus 17 C~~aK~~L~~~gi~y~~idi~-~d~~~~~~~ 46 (92)
T 2lqo_A 17 CLRLKTALTANRIAYDEVDIE-HNRAAAEFV 46 (92)
T ss_dssp HHHHHHHHHHTTCCCEEEETT-TCHHHHHHH
T ss_pred HHHHHHHHHhcCCceEEEEcC-CCHHHHHHH
Confidence 344455688999999887766 677665544
No 10
>1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A
Probab=12.41 E-value=1.3e+02 Score=20.87 Aligned_cols=21 Identities=14% Similarity=0.235 Sum_probs=12.2
Q ss_pred hhhHHHHHHHHHHhhhHHhhh
Q 033311 11 PKKNWLAAQHMKTISKRLRNF 31 (122)
Q Consensus 11 P~~~~~a~~y~~~~g~~yrk~ 31 (122)
++.+|+..+-.|.+-..+|+.
T Consensus 67 ~f~~~l~~~~~~~~~d~~r~~ 87 (239)
T 1rp3_A 67 RAEAYIKLRIKGAIYDYLRSL 87 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHTS
T ss_pred CHHHHHHHHHHHHHHHHHHhc
Confidence 345566666666665566654
Done!