Query 021971
Match_columns 304
No_of_seqs 220 out of 1433
Neff 5.4
Searched_HMMs 29240
Date Mon Mar 25 12:04:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021971.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/021971hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2l9b_A MRNA 3'-END-processing 39.6 54 0.0018 26.2 5.5 32 268-299 37-68 (109)
2 2zo4_A Metallo-beta-lactamase 37.0 49 0.0017 29.1 5.6 70 212-284 210-284 (317)
3 3ech_A MEXR, multidrug resista 32.4 55 0.0019 25.2 4.6 31 269-299 112-142 (142)
4 1fqj_C Retinal ROD rhodopsin-s 29.6 19 0.00065 23.8 1.1 17 226-242 1-17 (42)
5 4ad9_A Lactb2, beta-lactamase- 24.9 61 0.0021 28.2 4.0 70 214-285 179-255 (289)
6 2b2h_A AMT-1, ammonium transpo 24.5 29 0.00098 33.6 1.8 36 198-237 270-305 (399)
7 3b9w_A Ammonium transporter fa 24.1 42 0.0014 32.5 2.9 41 198-238 260-301 (407)
8 3hd6_A Ammonium transporter RH 22.8 37 0.0013 33.8 2.3 45 198-242 309-356 (490)
9 4aik_A Transcriptional regulat 22.5 84 0.0029 25.0 4.1 29 270-298 108-136 (151)
10 2g9w_A Conserved hypothetical 21.8 96 0.0033 24.3 4.2 30 269-298 96-125 (138)
11 3hnn_A Putative diflavin flavo 21.4 51 0.0017 28.6 2.7 35 207-242 202-236 (262)
12 4dik_A Flavoprotein; TM0755, e 20.9 46 0.0016 31.8 2.4 38 204-242 208-245 (410)
13 3eco_A MEPR; mutlidrug efflux 20.2 1.3E+02 0.0044 22.7 4.6 30 269-298 108-137 (139)
No 1
>2l9b_A MRNA 3'-END-processing protein RNA15; 3' END mRNA maturation, transcription; NMR {Saccharomyces cerevisiae}
Probab=39.63 E-value=54 Score=26.25 Aligned_cols=32 Identities=19% Similarity=0.159 Sum_probs=25.8
Q ss_pred CHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhc
Q 021971 268 RVEMILEQILTALTYEEQKALYMKLGEILQER 299 (304)
Q Consensus 268 ~~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~~ 299 (304)
+++..+...+..|++|++.+++++++++..+.
T Consensus 37 ap~~~IS~~Laslpp~Ql~eiL~qmK~~~~~n 68 (109)
T 2l9b_A 37 TPAMMISSELAKKPKEVQLKFLQKFQEWTRAH 68 (109)
T ss_dssp CHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHC
T ss_pred chHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC
Confidence 46646666677899999999999999987754
No 2
>2zo4_A Metallo-beta-lactamase family protein; hydrolase; 2.10A {Thermus thermophilus}
Probab=37.03 E-value=49 Score=29.12 Aligned_cols=70 Identities=11% Similarity=0.025 Sum_probs=34.6
Q ss_pred hhhhHHHHHhhhcCCCCCCCCCCCCCcchhhh----hhhhhHHHHHHHHHHHHhccCCCCCHHHHHHHHHh-cCCHHH
Q 021971 212 PFGGFFASGFKRAFKIKDFGDSIPGHGGITDR----MDCQMVMAVFAYIYHQSFIVPQSFRVEMILEQILT-ALTYEE 284 (304)
Q Consensus 212 ~~GDl~~S~iKR~~gIKD~G~~iPGHGGilDR----~Dsll~~~~f~y~y~~~fi~~~~~~~~~~~~~~~~-~l~~~~ 284 (304)
...+..+|. +|..+. |.-.++||||+..+. ++..+----=..-.....+ ....|++++...+.. .+++.+
T Consensus 210 ~~~~~~~sl-~~l~~l-~~~~v~pgHg~~~~~~~~~i~~~~~~~~~~~~~i~~~l-~~~~t~~ei~~~~~~~~~~~~~ 284 (317)
T 2zo4_A 210 PLKDFLRSL-DRLADL-GARVAYAGHFGPIADVRQRAEELKAHHQARLEALLALL-DGPKTAWELSLHLFPQELDPAG 284 (317)
T ss_dssp HHHHHHHHH-HHHHTS-CCSEEEESSSSCBSCHHHHHHHHHHHHHHHHHHHHHHC-SSCBCHHHHHHHHCC-------
T ss_pred hHHHHHHHH-HHHhcC-CCCEEECCCCCccCCHHHHHHHHHHHHHHHHHHHHHHh-cCCCCHHHHHHHHhhcccChhH
Confidence 344555553 455555 447899999988754 3332211000001111222 566789999888765 565443
No 3
>3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 PDB: 1lnw_A 3mex_A
Probab=32.39 E-value=55 Score=25.18 Aligned_cols=31 Identities=23% Similarity=0.312 Sum_probs=24.9
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHhhc
Q 021971 269 VEMILEQILTALTYEEQKALYMKLGEILQER 299 (304)
Q Consensus 269 ~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~~ 299 (304)
.+.....+...+++||+.++.+.|+++..++
T Consensus 112 ~~~~~~~~~~~l~~~e~~~l~~~l~~l~~~~ 142 (142)
T 3ech_A 112 MSRVHDELFAPLTPVEQATLVHLLDQCLAAQ 142 (142)
T ss_dssp HHHHHHHHHTTSCHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHhcC
Confidence 3455566667899999999999999988764
No 4
>1fqj_C Retinal ROD rhodopsin-sensitive CGMP 3',5'- cyclic phosphodiesterase gamma-subunit...; RGS9, transducin, effector, pdegamma, G protein; HET: GDP; 2.02A {Bos taurus} SCOP: j.51.1.1
Probab=29.59 E-value=19 Score=23.80 Aligned_cols=17 Identities=41% Similarity=0.917 Sum_probs=10.8
Q ss_pred CCCCCCCCCCCCcchhh
Q 021971 226 KIKDFGDSIPGHGGITD 242 (304)
Q Consensus 226 gIKD~G~~iPGHGGilD 242 (304)
|+|-||+-+|||-|.--
T Consensus 1 gv~gf~~~ipGmeglgt 17 (42)
T 1fqj_C 1 GVQGFGDDIPGMEGLGT 17 (42)
T ss_dssp ----CTTCCSCCTTCCH
T ss_pred CCcccccccccccccCC
Confidence 67999999999977643
No 5
>4ad9_A Lactb2, beta-lactamase-like protein 2; hydrolase, metallo-beta lactamase, mitochondria; 2.60A {Homo sapiens}
Probab=24.88 E-value=61 Score=28.25 Aligned_cols=70 Identities=19% Similarity=0.229 Sum_probs=36.1
Q ss_pred hhHHHHHhhhcCCCCCCCCCCCCCcchhh----hhhhhhHHHHHHHHHHHHhcc---CCCCCHHHHHHHHHhcCCHHHH
Q 021971 214 GGFFASGFKRAFKIKDFGDSIPGHGGITD----RMDCQMVMAVFAYIYHQSFIV---PQSFRVEMILEQILTALTYEEQ 285 (304)
Q Consensus 214 GDl~~S~iKR~~gIKD~G~~iPGHGGilD----R~Dsll~~~~f~y~y~~~fi~---~~~~~~~~~~~~~~~~l~~~~~ 285 (304)
.+..+| ++|....++ ..++||||+..+ |++..+------+-.....+. ....|++++...+...++++..
T Consensus 179 ~~~~~s-l~~l~~l~~-~~v~pgHg~~~~~~~~~i~~~~~~~~~r~~~i~~~l~~~~~~~~t~~ei~~~~~~~~p~~l~ 255 (289)
T 4ad9_A 179 YDYMNS-LKELLKIKA-DIIYPGHGPVIHNAEAKIQQYISHRNIREQQILTLFRENFEKSFTVMELVKIIYKNTPENLH 255 (289)
T ss_dssp HHHHHH-HHHHHHHTC-SEEEESSSSCBSCHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCBCHHHHHHHHTTTSCGGGH
T ss_pred HHHHHH-HHHHHcCCC-CEEEeCCCChhcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCHHHH
Confidence 333444 344333333 389999998865 333332211011111122222 2467899999888766776544
No 6
>2b2h_A AMT-1, ammonium transporter; membrane protein, transport protein; 1.54A {Archaeoglobus fulgidus} PDB: 2b2f_A 2b2i_A 2b2j_A
Probab=24.54 E-value=29 Score=33.58 Aligned_cols=36 Identities=28% Similarity=0.305 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHhhhcCCCCCCCCCCCCC
Q 021971 198 WHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGH 237 (304)
Q Consensus 198 ~~~l~l~~~~sl~a~~GDl~~S~iKR~~gIKD~G~~iPGH 237 (304)
+.++++|++++++..++- .+|+++||-|.=+.+|=|
T Consensus 270 ~~A~iiG~iag~i~~~~~----~l~~kl~iDD~l~a~~vH 305 (399)
T 2b2h_A 270 KGAIVIGLVAGIVCYLAM----DFRIKKKIDESLDAWAIH 305 (399)
T ss_dssp HHHHHHHHHHHHHHHHHH----HHHHHTTCCCTTCHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH----HHHHHcCCCCCCCceecc
Confidence 678999999999998876 689999999988887777
No 7
>3b9w_A Ammonium transporter family; membrane protein, ammonia transport, rhesus protein, transpo protein; HET: BOG; 1.30A {Nitrosomonas europaea} PDB: 3bhs_A 3b9y_A* 3b9z_A*
Probab=24.07 E-value=42 Score=32.50 Aligned_cols=41 Identities=24% Similarity=0.253 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHhhhhhh-HHHHHhhhcCCCCCCCCCCCCCc
Q 021971 198 WHALCLGLFASIIAPFGG-FFASGFKRAFKIKDFGDSIPGHG 238 (304)
Q Consensus 198 ~~~l~l~~~~sl~a~~GD-l~~S~iKR~~gIKD~G~~iPGHG 238 (304)
+.++++|++++++..+|- ++...+||.+||-|.=+.+|-||
T Consensus 260 ~~A~iIG~iaG~i~~~~~~~l~~~l~~~l~iDD~l~a~~vHg 301 (407)
T 3b9w_A 260 VGAFVIGLLGGAISVVGFVFIQPMLESKAKTIDTCGVHNLHG 301 (407)
T ss_dssp HHHHHHHHHHHHHHHHHHHTHHHHHHHHSCCCCTTCHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCeecch
Confidence 678999999999998886 45667889999999999999994
No 8
>3hd6_A Ammonium transporter RH type C; ammonia, channel, rhesus, glycoprotein, membran structural genomics, PSI-2, protein structure initiative; HET: BOG; 2.10A {Homo sapiens}
Probab=22.82 E-value=37 Score=33.76 Aligned_cols=45 Identities=24% Similarity=0.383 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHhhhhhh-HHHHHhhhcCCCCCCCCCCCCC--cchhh
Q 021971 198 WHALCLGLFASIIAPFGG-FFASGFKRAFKIKDFGDSIPGH--GGITD 242 (304)
Q Consensus 198 ~~~l~l~~~~sl~a~~GD-l~~S~iKR~~gIKD~G~~iPGH--GGilD 242 (304)
|.++++|++++++..+|- ++...+|+.+||-|.=+.++-| ||++-
T Consensus 309 ~~AliIG~iaG~i~~~~~~~l~~~l~~kl~iDD~lgv~~vHGv~Gi~G 356 (490)
T 3hd6_A 309 YGALIIGFVCGIISTLGFVYLTPFLESRLHIQDTCGINNLHGIPGIIG 356 (490)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCTTCHHHHTHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHCCCCccccchHHhhHHHHHH
Confidence 678999999999999884 4456789999999998998888 45543
No 9
>4aik_A Transcriptional regulator SLYA; transcription, transcription factor; 1.85A {Yersinia pseudotuberculosis} PDB: 4aih_A 4aij_A 3qpt_A* 3q5f_A*
Probab=22.49 E-value=84 Score=24.99 Aligned_cols=29 Identities=14% Similarity=0.184 Sum_probs=22.4
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHHHHHHhh
Q 021971 270 EMILEQILTALTYEEQKALYMKLGEILQE 298 (304)
Q Consensus 270 ~~~~~~~~~~l~~~~~~~l~~~l~~~~~~ 298 (304)
..+...+...|++||+..+.+.|+++..|
T Consensus 108 ~~~~~~~~~~l~~ee~~~l~~~L~kl~~n 136 (151)
T 4aik_A 108 SSTRKEILGGISSDEIAVLSGLIDKLEKN 136 (151)
T ss_dssp HHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 44555566789999999999998887654
No 10
>2g9w_A Conserved hypothetical protein; DNA-binding domain, bacterial transcription repressor, DNA B protein; 1.80A {Mycobacterium tuberculosis} SCOP: a.4.5.39
Probab=21.75 E-value=96 Score=24.29 Aligned_cols=30 Identities=20% Similarity=0.205 Sum_probs=22.9
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHhh
Q 021971 269 VEMILEQILTALTYEEQKALYMKLGEILQE 298 (304)
Q Consensus 269 ~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~ 298 (304)
...+...+...||+||+.+|.+.|+++..+
T Consensus 96 ~~~~~~~~~~~ls~eE~~~L~~lL~~~~~~ 125 (138)
T 2g9w_A 96 RQAALVHFVERVGADEADALRRALAELEAG 125 (138)
T ss_dssp HHHHHHHHHHHSCHHHHHHHHHHHHHHHC-
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHhhhc
Confidence 445555566679999999999999987654
No 11
>3hnn_A Putative diflavin flavoprotein A 5; PSI-2, protein structure initiative, northeast structural GE consortium, NESG, NSR435A, DFA5, electron transport; 1.80A {Nostoc SP} PDB: 4fek_A
Probab=21.44 E-value=51 Score=28.57 Aligned_cols=35 Identities=14% Similarity=0.285 Sum_probs=25.8
Q ss_pred HHHhhhhhhHHHHHhhhcCCCCCCCCCCCCCcchhh
Q 021971 207 ASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITD 242 (304)
Q Consensus 207 ~sl~a~~GDl~~S~iKR~~gIKD~G~~iPGHGGilD 242 (304)
..+.++...-....++|.... |.-.++||||.+++
T Consensus 202 ~~~~~~~~~~~~~sl~~l~~L-~~~~i~PgHG~~~~ 236 (262)
T 3hnn_A 202 NCLMAPHAIHVEAALEKISDL-QVRLYAVGHGPLVR 236 (262)
T ss_dssp HHHTGGGHHHHHHHHHHHTTS-CCSEEEESSSSEES
T ss_pred HHHhhhhHHHHHHHHHHHhCC-CCCEEECCCCcccc
Confidence 445566655666778887776 44889999999986
No 12
>4dik_A Flavoprotein; TM0755, electron transport, DI-iron protein; 1.75A {Thermotoga maritima} PDB: 4dil_A 1vme_A*
Probab=20.86 E-value=46 Score=31.79 Aligned_cols=38 Identities=18% Similarity=0.429 Sum_probs=32.1
Q ss_pred HHHHHHhhhhhhHHHHHhhhcCCCCCCCCCCCCCcchhh
Q 021971 204 GLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITD 242 (304)
Q Consensus 204 ~~~~sl~a~~GDl~~S~iKR~~gIKD~G~~iPGHGGilD 242 (304)
--...+.++++..+...+||..+. |---+.||||-++.
T Consensus 208 ~yy~~i~~p~~~~v~~~L~kl~~L-di~~I~P~HGpi~r 245 (410)
T 4dik_A 208 KYIVTVIGHYKNYILEGAEKLSSL-KIKALLPGHGLIWK 245 (410)
T ss_dssp HHHHHHHGGGHHHHHHHHHHHHTS-CCSEEEESSSCBBS
T ss_pred HHHHhhccchHHHHHHHHHHHhCC-CCCEEecCCcchhh
Confidence 456788899999999999998776 45789999999983
No 13
>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix motif, DNA-binding, transcription, transcription regulation; 2.40A {Staphylococcus aureus} SCOP: a.4.5.0
Probab=20.15 E-value=1.3e+02 Score=22.72 Aligned_cols=30 Identities=17% Similarity=0.352 Sum_probs=23.6
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHhh
Q 021971 269 VEMILEQILTALTYEEQKALYMKLGEILQE 298 (304)
Q Consensus 269 ~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~ 298 (304)
.+.....+...+++||+.++.+.|+++..+
T Consensus 108 ~~~~~~~~~~~l~~~e~~~l~~~l~~l~~~ 137 (139)
T 3eco_A 108 FDEMEQTLVSQLSEEENEQMKANLTKMLSS 137 (139)
T ss_dssp HHHHHHHHHTTSCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHHh
Confidence 345556666789999999999999987654
Done!