Query 023804
Match_columns 277
No_of_seqs 113 out of 126
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 13:04:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023804.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/023804hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ahq_A Sigma-54, RNA polymeras 71.8 2.3 7.9E-05 32.0 2.6 39 237-276 25-65 (76)
2 3t76_A VANU, transcriptional r 63.6 4.1 0.00014 30.5 2.5 25 251-275 63-87 (88)
3 2xi8_A Putative transcription 50.7 11 0.00037 24.7 2.7 28 248-275 38-65 (66)
4 2ewt_A BLDD, putative DNA-bind 45.2 18 0.00061 24.2 3.2 24 248-271 47-70 (71)
5 1y7y_A C.AHDI; helix-turn-heli 44.4 18 0.00061 24.3 3.1 24 248-271 50-73 (74)
6 3sk7_A Protein SEQA; sequestra 43.3 23 0.00079 28.8 3.9 36 223-263 74-116 (116)
7 3omt_A Uncharacterized protein 41.8 24 0.00083 24.0 3.5 26 248-273 45-70 (73)
8 3bs3_A Putative DNA-binding pr 41.2 23 0.00079 23.9 3.2 25 248-272 47-71 (76)
9 3b7h_A Prophage LP1 protein 11 36.7 23 0.00079 24.0 2.7 25 250-274 47-71 (78)
10 2r1j_L Repressor protein C2; p 35.7 21 0.00071 23.5 2.2 24 248-271 42-65 (68)
11 3f6w_A XRE-family like protein 34.1 23 0.00078 24.6 2.3 25 248-272 51-75 (83)
12 1adr_A P22 C2 repressor; trans 30.7 28 0.00097 23.4 2.3 26 248-273 42-67 (76)
13 2b5a_A C.BCLI; helix-turn-heli 30.1 29 0.00098 23.5 2.2 26 248-273 47-72 (77)
14 1lmb_3 Protein (lambda repress 29.6 40 0.0014 23.8 3.1 26 248-273 54-79 (92)
15 3kz3_A Repressor protein CI; f 29.1 42 0.0014 23.3 3.0 24 248-271 49-72 (80)
16 2k9q_A Uncharacterized protein 28.9 22 0.00074 24.6 1.4 28 248-275 39-66 (77)
17 3s8q_A R-M controller protein; 28.8 28 0.00096 24.1 2.0 26 248-273 48-73 (82)
18 3qq6_A HTH-type transcriptiona 28.1 33 0.0011 24.1 2.3 27 248-274 48-74 (78)
19 2o3f_A Putative HTH-type trans 27.7 31 0.0011 26.6 2.3 19 248-266 48-66 (111)
20 3g5g_A Regulatory protein; tra 26.9 30 0.001 25.8 2.0 26 248-273 65-90 (99)
21 3iwf_A Transcription regulator 26.5 34 0.0012 26.4 2.3 19 248-266 44-62 (107)
22 1x57_A Endothelial differentia 25.8 42 0.0014 23.8 2.6 24 248-271 50-73 (91)
23 2kpj_A SOS-response transcript 25.7 50 0.0017 23.7 3.0 28 248-275 46-73 (94)
24 3fmt_A Protein SEQA; protein-D 25.1 60 0.002 27.8 3.7 36 223-263 120-162 (162)
25 3lfp_A CSP231I C protein; tran 24.0 62 0.0021 23.4 3.2 26 248-273 42-67 (98)
26 2ofy_A Putative XRE-family tra 22.6 46 0.0016 23.2 2.2 26 248-273 51-77 (86)
27 3vk0_A NHTF, transcriptional r 22.4 53 0.0018 24.6 2.6 26 248-273 58-83 (114)
28 3op9_A PLI0006 protein; struct 20.8 58 0.002 24.1 2.5 27 248-274 46-72 (114)
29 2wiu_B HTH-type transcriptiona 20.3 39 0.0013 23.5 1.4 26 248-273 49-74 (88)
30 1k8b_A EIF-2-beta, probable tr 20.0 25 0.00085 24.5 0.3 18 256-273 14-31 (52)
No 1
>2ahq_A Sigma-54, RNA polymerase sigma factor RPON; sigma-54,sigma factors, solution structure, transcription; NMR {Aquifex aeolicus} PDB: 2o8k_A 2o9l_A
Probab=71.80 E-value=2.3 Score=32.03 Aligned_cols=39 Identities=26% Similarity=0.313 Sum_probs=34.5
Q ss_pred HHHHHhhCCCCCCCCCHHHHHHHHhhhCCC--cccccccccC
Q 023804 237 LEELIHSGGKTDDGLSKCAILNICTIYKLN--PIDVLKYRNS 276 (277)
Q Consensus 237 l~~~~~~~~~~~~~l~~~~i~~ic~~~~l~--~~d~~k~~~~ 276 (277)
+.+++..||. ..-||.+.|.++.++-|++ +--|-|||..
T Consensus 25 Ik~lI~~Ed~-~kPlSD~~I~~~L~~~Gi~IaRRTVaKYRe~ 65 (76)
T 2ahq_A 25 IKEIVENEDK-RKPYSDQEIANILKEKGFKVARRTVAKYREM 65 (76)
T ss_dssp HHHHGGGCCS-SSCCCHHHHHHHHTTTSSCCCHHHHHHHHHH
T ss_pred HHHHHHhcCC-CCCCCHHHHHHHHHHcCCCccHHHHHHHHHH
Confidence 4788998887 8889999999999999988 8899999974
No 2
>3t76_A VANU, transcriptional regulator vanug; structural genomics, center for structural genomics of infec diseases, csgid; HET: MSE; 1.12A {Enterococcus faecalis} PDB: 3t75_A* 3tyr_A* 3tys_A*
Probab=63.61 E-value=4.1 Score=30.50 Aligned_cols=25 Identities=20% Similarity=0.300 Sum_probs=23.1
Q ss_pred CCHHHHHHHHhhhCCCccccccccc
Q 023804 251 LSKCAILNICTIYKLNPIDVLKYRN 275 (277)
Q Consensus 251 l~~~~i~~ic~~~~l~~~d~~k~~~ 275 (277)
++.+++..||+.|+++.+|++.|.+
T Consensus 63 ~s~~~l~kIa~~L~v~~~~L~~~~~ 87 (88)
T 3t76_A 63 VSLTVLLAICEYLNCDFGDIIEALP 87 (88)
T ss_dssp CCHHHHHHHHHHHTCCGGGTCEEEE
T ss_pred cCHHHHHHHHHHHCcCHHHHhccCC
Confidence 6999999999999999999998864
No 3
>2xi8_A Putative transcription regulator; HTH DNA-binding motif; HET: GOL; 1.21A {Enterococcus faecalis} PDB: 2gzu_A 1utx_A* 2xj3_A 2xiu_A
Probab=50.68 E-value=11 Score=24.73 Aligned_cols=28 Identities=14% Similarity=0.095 Sum_probs=23.9
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKYRN 275 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~~~ 275 (277)
....+.+++..||+.||++.++++.+.+
T Consensus 38 ~~~~~~~~l~~i~~~l~~~~~~l~~~~~ 65 (66)
T 2xi8_A 38 KYNPSLQLALKIAYYLNTPLEDIFQWQP 65 (66)
T ss_dssp SCCCCHHHHHHHHHHTTSCHHHHEEECC
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhCCCC
Confidence 4467999999999999999999987654
No 4
>2ewt_A BLDD, putative DNA-binding protein; the DNA-binding domain of BLDD; 1.81A {Streptomyces coelicolor}
Probab=45.25 E-value=18 Score=24.23 Aligned_cols=24 Identities=13% Similarity=0.317 Sum_probs=21.1
Q ss_pred CCCCCHHHHHHHHhhhCCCccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVL 271 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~ 271 (277)
...++.+++..||+.||++.++++
T Consensus 47 ~~~~~~~~l~~la~~l~v~~~~l~ 70 (71)
T 2ewt_A 47 DRAVTVQRLAELADFYGVPVQELL 70 (71)
T ss_dssp CSCCCHHHHHHHHHHHTSCGGGGC
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHc
Confidence 445899999999999999999886
No 5
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional regulator, transcription regulator; 1.69A {Aeromonas hydrophila} SCOP: a.35.1.3
Probab=44.42 E-value=18 Score=24.29 Aligned_cols=24 Identities=21% Similarity=0.450 Sum_probs=21.3
Q ss_pred CCCCCHHHHHHHHhhhCCCccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVL 271 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~ 271 (277)
....+.+.+..||+.||++.++++
T Consensus 50 ~~~~~~~~l~~l~~~l~~~~~~l~ 73 (74)
T 1y7y_A 50 QRNVSLVNILKLATALDIEPRELF 73 (74)
T ss_dssp CSCCBHHHHHHHHHHTTSCGGGGC
T ss_pred CCCCCHHHHHHHHHHhCcCHHHHc
Confidence 456899999999999999999875
No 6
>3sk7_A Protein SEQA; sequestration, negative regulator, DNA replication initiatio binding, replication inhibitor; HET: FME; 1.50A {Vibrio cholerae}
Probab=43.34 E-value=23 Score=28.77 Aligned_cols=36 Identities=11% Similarity=0.244 Sum_probs=28.3
Q ss_pred cCCCCc-cccCCchh------HHHHHhhCCCCCCCCCHHHHHHHHhhh
Q 023804 223 NLQGVP-SILVPSGE------LEELIHSGGKTDDGLSKCAILNICTIY 263 (277)
Q Consensus 223 ~~~~~~-~~~~~s~~------l~~~~~~~~~~~~~l~~~~i~~ic~~~ 263 (277)
|+-.+| |+..+.-- |+++++ .-|.+++.|+.+|..+
T Consensus 74 ~Ip~TpfWViTN~NT~rKr~ml~~vm~-----~mg~~~~lie~V~~~i 116 (116)
T 3sk7_A 74 AIPNTPFWVITNNNTSRKQQMVEQVMV-----RMGFPSDIIEKVTHSI 116 (116)
T ss_dssp ECTTSSCEECCCSCHHHHHHHHHHHHH-----HTTCCHHHHHHHHHTC
T ss_pred cCCCCCeeEEeCCCcHHHHHHHHHHHH-----HcCCCHHHHHHHHhcC
Confidence 667788 88777543 588888 6789999999999753
No 7
>3omt_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 1.65A {Cytophaga hutchinsonii}
Probab=41.84 E-value=24 Score=23.97 Aligned_cols=26 Identities=12% Similarity=0.144 Sum_probs=22.6
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
...++.+++..||+.||++.++++.-
T Consensus 45 ~~~~~~~~l~~ia~~l~v~~~~l~~~ 70 (73)
T 3omt_A 45 DVQPSLETLFDIAEALNVDVRELIVS 70 (73)
T ss_dssp SSCCCHHHHHHHHHHHTSCGGGGBCC
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhcC
Confidence 44589999999999999999998754
No 8
>3bs3_A Putative DNA-binding protein; XRE-family, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.65A {Bacteroides fragilis}
Probab=41.21 E-value=23 Score=23.92 Aligned_cols=25 Identities=8% Similarity=0.293 Sum_probs=21.8
Q ss_pred CCCCCHHHHHHHHhhhCCCcccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLK 272 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k 272 (277)
....+.+.+..||+.||++.++++.
T Consensus 47 ~~~~~~~~l~~ia~~l~~~~~~l~~ 71 (76)
T 3bs3_A 47 KSQPSLDMLVKVAELLNVDPRQLIN 71 (76)
T ss_dssp SSCCCHHHHHHHHHHHTSCGGGGBC
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhc
Confidence 4457999999999999999999875
No 9
>3b7h_A Prophage LP1 protein 11; structural genomics, PSI2, MCSG, protein structure initiative, midwest center for structural genomics; 2.00A {Lactobacillus plantarum WCFS1}
Probab=36.70 E-value=23 Score=24.04 Aligned_cols=25 Identities=12% Similarity=0.292 Sum_probs=22.3
Q ss_pred CCCHHHHHHHHhhhCCCcccccccc
Q 023804 250 GLSKCAILNICTIYKLNPIDVLKYR 274 (277)
Q Consensus 250 ~l~~~~i~~ic~~~~l~~~d~~k~~ 274 (277)
..+.+++..||+.||++.++++...
T Consensus 47 ~~~~~~l~~ia~~l~~~~~~l~~~~ 71 (78)
T 3b7h_A 47 RPTITTIRKVCGTLGISVHDFFDFP 71 (78)
T ss_dssp CCCHHHHHHHHHHHTCCHHHHTCST
T ss_pred CCCHHHHHHHHHHcCCCHHHHhcCC
Confidence 6899999999999999999888654
No 10
>2r1j_L Repressor protein C2; protein-DNA complex, helix-turn-helix, DNA-binding, transcription, transcription regulation; 1.53A {Enterobacteria phage P22} SCOP: a.35.1.2 PDB: 3jxb_C 3jxc_L 3jxd_L
Probab=35.73 E-value=21 Score=23.46 Aligned_cols=24 Identities=13% Similarity=0.175 Sum_probs=20.6
Q ss_pred CCCCCHHHHHHHHhhhCCCccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVL 271 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~ 271 (277)
....+.+.+..||+.|+++.++++
T Consensus 42 ~~~~~~~~l~~i~~~l~~~~~~l~ 65 (68)
T 2r1j_L 42 ETEPNGENLLALSKALQCSPDYLL 65 (68)
T ss_dssp SSCCBHHHHHHHHHHTTSCHHHHH
T ss_pred CCCCCHHHHHHHHHHhCCCHHHHh
Confidence 445799999999999999988875
No 11
>3f6w_A XRE-family like protein; helix-turn-helix, DNA binding protein, xenobiotic response E family of transcriptional regulators; HET: MSE BTB; 1.85A {Pseudomonas syringae PV}
Probab=34.08 E-value=23 Score=24.60 Aligned_cols=25 Identities=16% Similarity=0.381 Sum_probs=21.7
Q ss_pred CCCCCHHHHHHHHhhhCCCcccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLK 272 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k 272 (277)
.-.++.+++..||+.||++.++++.
T Consensus 51 ~~~~~~~~l~~l~~~l~~~~~~l~~ 75 (83)
T 3f6w_A 51 ERRLDVIEFMDFCRGIGTDPYALLS 75 (83)
T ss_dssp SSCCCHHHHHHHHHHHTCCHHHHHH
T ss_pred CCCCCHHHHHHHHHHcCCCHHHHHH
Confidence 4568999999999999999888764
No 12
>1adr_A P22 C2 repressor; transcription regulation; NMR {Enterobacteria phage P22} SCOP: a.35.1.2
Probab=30.70 E-value=28 Score=23.37 Aligned_cols=26 Identities=15% Similarity=0.152 Sum_probs=21.9
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
....+.+.+..||+.||++.++++.-
T Consensus 42 ~~~~~~~~l~~ia~~l~~~~~~l~~~ 67 (76)
T 1adr_A 42 ETEPNGENLLALSKALQCSPDYLLKG 67 (76)
T ss_dssp SSCCCHHHHHHHHHHTTSCHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhcC
Confidence 44579999999999999998888743
No 13
>2b5a_A C.BCLI; helix-turn-helix motif, gene regulation; 1.54A {Bacillus caldolyticus} SCOP: a.35.1.3
Probab=30.15 E-value=29 Score=23.49 Aligned_cols=26 Identities=19% Similarity=0.362 Sum_probs=22.4
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
...++.+++..||+.||++.++++..
T Consensus 47 ~~~~~~~~l~~la~~l~~~~~~l~~~ 72 (77)
T 2b5a_A 47 DRNISLINIHKICAALDIPASTFFRK 72 (77)
T ss_dssp CSCCBHHHHHHHHHHTTCCHHHHHHH
T ss_pred CCCCCHHHHHHHHHHhCcCHHHHhcc
Confidence 44689999999999999999888754
No 14
>1lmb_3 Protein (lambda repressor); protein-DNA complex, double helix, transcription/DNA complex; HET: DNA; 1.80A {Enterobacteria phage lambda} SCOP: a.35.1.2 PDB: 1lrp_A 1rio_A 1lli_A*
Probab=29.62 E-value=40 Score=23.75 Aligned_cols=26 Identities=12% Similarity=0.061 Sum_probs=22.3
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
....+.+++..||+.||++.++++..
T Consensus 54 ~~~~~~~~l~~ia~~l~v~~~~l~~~ 79 (92)
T 1lmb_3 54 INALNAYNAALLAKILKVSVEEFSPS 79 (92)
T ss_dssp SSCCCHHHHHHHHHHHTSCGGGTCHH
T ss_pred CCCCCHHHHHHHHHHHCCCHHHHhhh
Confidence 45689999999999999999888754
No 15
>3kz3_A Repressor protein CI; five helix bundle, DNA-binding, transcription, transcription regulation; 1.64A {Enterobacteria phage lambda}
Probab=29.13 E-value=42 Score=23.27 Aligned_cols=24 Identities=13% Similarity=0.101 Sum_probs=20.9
Q ss_pred CCCCCHHHHHHHHhhhCCCccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVL 271 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~ 271 (277)
....+.+++..||+.||++.+|+.
T Consensus 49 ~~~~~~~~~~~ia~~l~v~~~~l~ 72 (80)
T 3kz3_A 49 INALNAYNAALLAKILKVSVEEFS 72 (80)
T ss_dssp SSCCCHHHHHHHHHHHTSCGGGTC
T ss_pred CCCCCHHHHHHHHHHhCCCHHHHh
Confidence 556889999999999999988765
No 16
>2k9q_A Uncharacterized protein; all helix, helix-turn-helix, plasmid, structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides thetaiotaomicron}
Probab=28.91 E-value=22 Score=24.58 Aligned_cols=28 Identities=0% Similarity=-0.119 Sum_probs=23.3
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKYRN 275 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~~~ 275 (277)
....+.+++..||+.|+++.++++.+.+
T Consensus 39 ~~~p~~~~l~~ia~~l~v~~~~l~~~~~ 66 (77)
T 2k9q_A 39 ETAPVVVKYIAFLRSKGVDLNALFDRII 66 (77)
T ss_dssp CSCCHHHHHHHHHHHTTCCHHHHHHHHS
T ss_pred CCCCCHHHHHHHHHHhCcCHHHHhCccc
Confidence 4458899999999999999998876643
No 17
>3s8q_A R-M controller protein; protein-DNA complex, helix-turn-helix; HET: DNA; 2.10A {Enterobacter SP} SCOP: a.35.1.0 PDB: 3clc_A* 3ufd_A*
Probab=28.84 E-value=28 Score=24.12 Aligned_cols=26 Identities=8% Similarity=0.060 Sum_probs=22.3
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
....+-+++..||+.|+++.++++..
T Consensus 48 ~~~~~~~~l~~ia~~l~v~~~~l~~~ 73 (82)
T 3s8q_A 48 SRNLTIKSLELIMKGLEVSDVVFFEM 73 (82)
T ss_dssp CCCCBHHHHHHHHHHTTCCHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhcC
Confidence 45689999999999999998887654
No 18
>3qq6_A HTH-type transcriptional regulator SINR; helix-turn-helix motif, biofilm, repressor, SINI; 1.90A {Bacillus subtilis}
Probab=28.09 E-value=33 Score=24.05 Aligned_cols=27 Identities=7% Similarity=0.096 Sum_probs=23.1
Q ss_pred CCCCCHHHHHHHHhhhCCCcccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKYR 274 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~~ 274 (277)
....+-+++..||+.|+++.++++...
T Consensus 48 ~~~p~~~~l~~ia~~l~v~~~~l~~~~ 74 (78)
T 3qq6_A 48 QTNPSIQFLEKVSAVLDVSVHTLLDEK 74 (78)
T ss_dssp CCCCBHHHHHHHHHHHTCCHHHHHHSC
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhCCC
Confidence 356899999999999999999887654
No 19
>2o3f_A Putative HTH-type transcriptional regulator YBBH; APC85504, putative transcriptional regulator YBBH; HET: MLY; 1.75A {Bacillus subtilis} SCOP: a.4.1.20
Probab=27.71 E-value=31 Score=26.61 Aligned_cols=19 Identities=21% Similarity=0.324 Sum_probs=17.6
Q ss_pred CCCCCHHHHHHHHhhhCCC
Q 023804 248 DDGLSKCAILNICTIYKLN 266 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~ 266 (277)
.-+.|+.||.++|+++|.+
T Consensus 48 ~~~vS~aTv~Rf~kklG~~ 66 (111)
T 2o3f_A 48 LANSSDAAVIRLCXSLGLK 66 (111)
T ss_dssp HTTCCHHHHHHHHHHTTCS
T ss_pred HHCCCHHHHHHHHHHcCCC
Confidence 5679999999999999998
No 20
>3g5g_A Regulatory protein; transcriptional regulator, helix-turn-helix, restriction- modification, transcription regulator; 2.80A {Enterobacter SP} PDB: 3fya_A
Probab=26.87 E-value=30 Score=25.76 Aligned_cols=26 Identities=8% Similarity=0.060 Sum_probs=22.5
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
...++.+++..||+.||++.++++..
T Consensus 65 ~~~ps~~~l~~ia~~l~v~~~~l~~~ 90 (99)
T 3g5g_A 65 SRNLTIKSLELIMKGLEVSDVVFFEM 90 (99)
T ss_dssp CSCCBHHHHHHHHHHTTCCHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhcc
Confidence 45689999999999999998888754
No 21
>3iwf_A Transcription regulator RPIR family; transcriptional, N-terminal, PSI, MCSG, structural genomics, midwest center structural genomics; 1.40A {Staphylococcus epidermidis}
Probab=26.51 E-value=34 Score=26.41 Aligned_cols=19 Identities=11% Similarity=0.051 Sum_probs=17.4
Q ss_pred CCCCCHHHHHHHHhhhCCC
Q 023804 248 DDGLSKCAILNICTIYKLN 266 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~ 266 (277)
.-+.|+.||.++|+++|.+
T Consensus 44 ~~~vS~aTv~Rf~kkLGf~ 62 (107)
T 3iwf_A 44 QLETSSTSIIRLSKKVTPG 62 (107)
T ss_dssp HHTSCHHHHHHHHHHHSTT
T ss_pred HHCCCHHHHHHHHHHhCCC
Confidence 5679999999999999988
No 22
>1x57_A Endothelial differentiation-related factor 1; HMBF1alpha, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.35.1.12
Probab=25.76 E-value=42 Score=23.81 Aligned_cols=24 Identities=8% Similarity=-0.220 Sum_probs=20.8
Q ss_pred CCCCCHHHHHHHHhhhCCCccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVL 271 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~ 271 (277)
....+.+++..||+.|+++.++++
T Consensus 50 ~~~p~~~~l~~la~~l~v~~~~l~ 73 (91)
T 1x57_A 50 RAIPNNQVLGKIERAIGLKLRGKD 73 (91)
T ss_dssp CSCCCHHHHHHHHHHHTBCCSSTT
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHc
Confidence 345899999999999999988875
No 23
>2kpj_A SOS-response transcriptional repressor, LEXA; NESG, GFT, structural genomics, PSI-2, protein structure initiative; NMR {Eubacterium rectale atcc 33656}
Probab=25.74 E-value=50 Score=23.68 Aligned_cols=28 Identities=7% Similarity=0.124 Sum_probs=23.2
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKYRN 275 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~~~ 275 (277)
....+.+++..||+.||++.++++...+
T Consensus 46 ~~~p~~~~l~~ia~~l~v~~~~l~~~~~ 73 (94)
T 2kpj_A 46 IAIPRMGKVQALADYFNINKSDLIEDKK 73 (94)
T ss_dssp SCCCCHHHHHHHHHHHTCCTHHHHSCSC
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhcCCC
Confidence 4457999999999999999998876543
No 24
>3fmt_A Protein SEQA; protein-DNA complex, hemimethylated GATC, DNA replication; HET: 6MA; 2.98A {Escherichia coli}
Probab=25.12 E-value=60 Score=27.76 Aligned_cols=36 Identities=14% Similarity=0.393 Sum_probs=28.2
Q ss_pred cCCCCc-cccCCchh------HHHHHhhCCCCCCCCCHHHHHHHHhhh
Q 023804 223 NLQGVP-SILVPSGE------LEELIHSGGKTDDGLSKCAILNICTIY 263 (277)
Q Consensus 223 ~~~~~~-~~~~~s~~------l~~~~~~~~~~~~~l~~~~i~~ic~~~ 263 (277)
|+-.+| |+..+.-- |+++.+ .-|...+.|+.+|..+
T Consensus 120 ~Ip~TpfWViTN~NT~rKr~ml~~vm~-----~mg~~~~lie~V~~~i 162 (162)
T 3fmt_A 120 HVPGTPYWVITNTNTGRKCSMIEHIMQ-----SMQFPAELIEKVCGTI 162 (162)
T ss_dssp ECTTSSCEEECCSCHHHHHHHHHHHHH-----HTTCCHHHHHHHHHHC
T ss_pred cCCCCCeeEEecCCcHHHHHHHHHHHH-----HcCCCHHHHHHHHhcC
Confidence 667788 88776543 578887 6789999999999763
No 25
>3lfp_A CSP231I C protein; transcriptional regulator, DNA binding protein, helix-turn-H restriction-modification, transcription; 2.00A {Citrobacter SP} PDB: 3lis_A
Probab=24.00 E-value=62 Score=23.36 Aligned_cols=26 Identities=4% Similarity=-0.086 Sum_probs=22.3
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
....+.+++..||+.||++.++++..
T Consensus 42 ~~~p~~~~l~~la~~l~v~~~~l~~~ 67 (98)
T 3lfp_A 42 KHAPDFEMANRLAKVLKIPVSYLYTP 67 (98)
T ss_dssp SSCCCHHHHHHHHHHHTSCGGGGGCC
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHhCC
Confidence 45689999999999999999888753
No 26
>2ofy_A Putative XRE-family transcriptional regulator; transcription regulator, structural genomics, PS protein structure initiative; 1.70A {Rhodococcus SP} SCOP: a.35.1.3
Probab=22.64 E-value=46 Score=23.18 Aligned_cols=26 Identities=15% Similarity=0.051 Sum_probs=22.2
Q ss_pred CC-CCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DD-GLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~-~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
.. ..+.+++..||+.||++.++++..
T Consensus 51 ~~~~p~~~~l~~ia~~l~v~~~~l~~~ 77 (86)
T 2ofy_A 51 RIATPAFFTIAAVARVLDLSLDDVAAV 77 (86)
T ss_dssp CCSSCBHHHHHHHHHHTTCCHHHHHTT
T ss_pred CCCCCCHHHHHHHHHHhCCCHHHHhcc
Confidence 44 689999999999999998888754
No 27
>3vk0_A NHTF, transcriptional regulator; HTH motif, XRE transcription factor, DNA binding protein; 1.88A {Neisseria meningitidis}
Probab=22.45 E-value=53 Score=24.59 Aligned_cols=26 Identities=8% Similarity=0.038 Sum_probs=22.4
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
...++.+++..||+.||++.++++..
T Consensus 58 ~~~p~~~~l~~ia~~l~v~~~~l~~~ 83 (114)
T 3vk0_A 58 RWNIALSNIEKMAAALGVAAYQLLLP 83 (114)
T ss_dssp CCCCCHHHHHHHHHHHTSCHHHHTSC
T ss_pred CCCCCHHHHHHHHHHhCCCHHHHhCC
Confidence 55689999999999999998888653
No 28
>3op9_A PLI0006 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, transcription regulat; HET: MSE; 1.90A {Listeria innocua}
Probab=20.76 E-value=58 Score=24.09 Aligned_cols=27 Identities=11% Similarity=0.255 Sum_probs=22.7
Q ss_pred CCCCCHHHHHHHHhhhCCCcccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKYR 274 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~~ 274 (277)
....+.+++..||+.||++.++++...
T Consensus 46 ~~~p~~~~l~~la~~l~v~~~~l~~~~ 72 (114)
T 3op9_A 46 ETKPDIEKLIRLATYFHLSIDELVGYV 72 (114)
T ss_dssp SSCCCHHHHHHHHHHHTCCHHHHHTCC
T ss_pred CCCCCHHHHHHHHHHhCCCHHHHhcCC
Confidence 445899999999999999988887654
No 29
>2wiu_B HTH-type transcriptional regulator HIPB; transferase transcription complex, serine kinase, DNA-bindin mercury derivative, repressor; 2.35A {Escherichia coli} PDB: 3dnv_B* 3dnw_B* 3hzi_B*
Probab=20.27 E-value=39 Score=23.49 Aligned_cols=26 Identities=12% Similarity=-0.001 Sum_probs=21.1
Q ss_pred CCCCCHHHHHHHHhhhCCCccccccc
Q 023804 248 DDGLSKCAILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 248 ~~~l~~~~i~~ic~~~~l~~~d~~k~ 273 (277)
....+.+.+..||+.|+++.++++..
T Consensus 49 ~~~~~~~~l~~i~~~l~~~~~~l~~~ 74 (88)
T 2wiu_B 49 PDNTTLTTFFKILQSLELSMTLCDAK 74 (88)
T ss_dssp GGGCBHHHHHHHHHHTTCEEEEEC--
T ss_pred CCCCCHHHHHHHHHHhCCCHHHhccC
Confidence 44589999999999999998888743
No 30
>1k8b_A EIF-2-beta, probable translation initiation factor 2 beta subunit; N-terminal domain, AIF2 subunit beta; NMR {Methanocaldococcus jannaschii} SCOP: d.241.1.1
Probab=20.04 E-value=25 Score=24.50 Aligned_cols=18 Identities=11% Similarity=0.080 Sum_probs=16.4
Q ss_pred HHHHHhhhCCCccccccc
Q 023804 256 ILNICTIYKLNPIDVLKY 273 (277)
Q Consensus 256 i~~ic~~~~l~~~d~~k~ 273 (277)
+.+||+.++=+++.|+||
T Consensus 14 f~~Ia~~L~R~p~hv~ky 31 (52)
T 1k8b_A 14 FRELAKAVNRDEEFFAKY 31 (52)
T ss_dssp HHHHHHHHHTCHHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHH
Confidence 568999999999999998
Done!