Query 001216
Match_columns 1122
No_of_seqs 30 out of 32
Neff 2.0
Searched_HMMs 29240
Date Mon Mar 25 16:55:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001216.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/001216hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3g1o_A Transcriptional regulat 23.6 15 0.00052 34.5 -0.3 94 853-955 80-174 (255)
2 3gmt_A Adenylate kinase; ssgci 20.3 70 0.0024 32.5 3.7 21 976-996 86-106 (230)
3 2qya_A Uncharacterized conserv 20.2 38 0.0013 32.8 1.7 15 209-223 13-27 (124)
4 3q0w_A HTH-type transcriptiona 18.4 47 0.0016 30.7 1.8 93 854-955 82-175 (236)
5 2k44_A Hsapbk, K+-channel volt 18.4 7.8 0.00027 29.5 -2.7 15 318-332 8-22 (28)
6 3n3f_A Collagen alpha-1(XV) ch 16.7 51 0.0018 27.8 1.5 29 951-979 11-41 (54)
7 3g7r_A Putative transcriptiona 16.7 69 0.0023 29.3 2.5 142 852-1005 71-212 (221)
8 1qus_A Lytic murein transglyco 15.9 26 0.00089 37.7 -0.6 36 179-214 167-205 (322)
9 1rwu_A Hypothetical UPF0250 pr 15.8 47 0.0016 30.9 1.1 30 482-511 49-80 (109)
10 3v53_A RNA-binding protein 25; 15.7 19 0.00066 34.3 -1.5 40 921-964 44-85 (119)
No 1
>3g1o_A Transcriptional regulatory repressor protein (TETR-family) EThr; TERT family, transcriptional repressor, DNA-binding; HET: RF1; 1.85A {Mycobacterium tuberculosis}
Probab=23.60 E-value=15 Score=34.46 Aligned_cols=94 Identities=11% Similarity=0.133 Sum_probs=60.5
Q ss_pred HHHHHhhccccchhhhHHHHHHhhhCCCCCCCccc-chhhhhHHHHHHhhhhhhccCccchhhHHHhhhccccccccccc
Q 001216 853 LRSVLAEKQELCFSVVSLLWNKLIAAPETQPSAES-TSAQQGWRQVVDALCNVVSASPTKAATAVVLQAERELQPWIAKD 931 (1122)
Q Consensus 853 LrSVLaEKQELCFSVVSLLWhkLIaaPEtq~saEs-TSAqQGWRQVVDAlCnVVsAsP~KAatavVLQAEr~lQPWIArd 931 (1122)
|-.-..-|.||-..|+--.+.++...=+....... .+..+.++++++++.+.+...|. ...++++ + ...+
T Consensus 80 lY~~F~sK~~L~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~--~~~~~~~-~------~~~~ 150 (255)
T 3g1o_A 80 FYFYFPSKEAVLLTLLDRVVNQADMALQTLAENPADTDRENMWRTGINVFFETFGSHKA--VTRAGQA-A------RATS 150 (255)
T ss_dssp HHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHTSHH--HHHHHHH-G------GGTC
T ss_pred HHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHhchH--HHHHHHH-H------hhcC
Confidence 33457789999988888888777654332222222 46778899999999998877664 2222332 2 2234
Q ss_pred cccccchhhhhhHHHHHHHHHHHh
Q 001216 932 DDQGQKMWRINQRIVKLIVELMRI 955 (1122)
Q Consensus 932 D~~GQkmWRiNQRIVkLivELmRn 955 (1122)
++..+.+-++.+++.+.+.++++.
T Consensus 151 ~~~~~~~~~~~~~~~~~l~~~l~~ 174 (255)
T 3g1o_A 151 VEVAELWSTFMQKWIAYTAAVIDA 174 (255)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555666777888888877776
No 2
>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}
Probab=20.31 E-value=70 Score=32.46 Aligned_cols=21 Identities=29% Similarity=0.499 Sum_probs=18.7
Q ss_pred cCCceecCCccCcchHHHHHH
Q 001216 976 TDGMLVDGEACTLPQLELLEA 996 (1122)
Q Consensus 976 TDGMLVDGEACTLPQLELLEa 996 (1122)
..|.++||-++|+.|.|.|+.
T Consensus 86 ~~g~ILDGfPRt~~Qa~~L~~ 106 (230)
T 3gmt_A 86 ANGYLFDGFPRTIAQADAMKE 106 (230)
T ss_dssp TTCEEEESCCCSHHHHHHHHH
T ss_pred CCCeEecCCCCcHHHHHHHHH
Confidence 579999999999999999873
No 3
>2qya_A Uncharacterized conserved protein; structural genomics, unknown function, PSI-2, protein structure initiative; 2.17A {Methanopyrus kandleri AV19}
Probab=20.24 E-value=38 Score=32.76 Aligned_cols=15 Identities=40% Similarity=0.966 Sum_probs=12.6
Q ss_pred cCCeeEEeecchhhh
Q 001216 209 NGAGVILSVCDDELA 223 (1122)
Q Consensus 209 NGAgVIlSVCDdEva 223 (1122)
.|-+|+++|||+|+.
T Consensus 13 ~~~~vlVAvCDeeLL 27 (124)
T 2qya_A 13 TGDTVVLALCDEDLL 27 (124)
T ss_dssp ETTEEEEEEEEGGGT
T ss_pred eCCEEEEEEcChHHc
Confidence 355999999999985
No 4
>3q0w_A HTH-type transcriptional regulator EThr; TETR family, transcriptional repressor, transcription-transc inhibitor complex; HET: LL5; 1.60A {Mycobacterium tuberculosis} PDB: 3o8g_A* 3o8h_A* 3q0u_A* 3q0v_A* 3g1m_A* 3q3s_A* 3sdg_A* 3sfi_A* 1u9n_A* 1u9o_A* 3tp3_A 3qpl_A 3g1l_A* 1t56_A 3tp0_A*
Probab=18.41 E-value=47 Score=30.73 Aligned_cols=93 Identities=12% Similarity=0.129 Sum_probs=59.6
Q ss_pred HHHHhhccccchhhhHHHHHHhhhCCCCCCCccc-chhhhhHHHHHHhhhhhhccCccchhhHHHhhhcccccccccccc
Q 001216 854 RSVLAEKQELCFSVVSLLWNKLIAAPETQPSAES-TSAQQGWRQVVDALCNVVSASPTKAATAVVLQAERELQPWIAKDD 932 (1122)
Q Consensus 854 rSVLaEKQELCFSVVSLLWhkLIaaPEtq~saEs-TSAqQGWRQVVDAlCnVVsAsP~KAatavVLQAEr~lQPWIArdD 932 (1122)
-.-..-|.||-..|+--...++...-+.....+. .+..+..+.+++++.+.+...|.- ..++++. ...++
T Consensus 82 Y~~F~sK~~L~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~--~~~~~~~-------~~~~~ 152 (236)
T 3q0w_A 82 YFYFPSKEAVLLTLLDRVVNQADMALQTLAENPADTDRENMWRTGINVFFETFGSHKAV--TRAGQAA-------RATSV 152 (236)
T ss_dssp HHHCSSHHHHHHHHHHHHHHHHHHHHHHHHHSCCSSCHHHHHHHHHHHHHHHHHTTHHH--HHHHHHH-------TTTCH
T ss_pred HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHcCHHH--HHHHHHH-------hccCH
Confidence 3456788888888888887777654333222222 467788999999999998887742 2222221 22344
Q ss_pred ccccchhhhhhHHHHHHHHHHHh
Q 001216 933 DQGQKMWRINQRIVKLIVELMRI 955 (1122)
Q Consensus 933 ~~GQkmWRiNQRIVkLivELmRn 955 (1122)
+..+.+-.+.+++.+.+.++++.
T Consensus 153 ~~~~~~~~~~~~~~~~~~~~l~~ 175 (236)
T 3q0w_A 153 EVAELWSTFMQKWIAYTAAVIDA 175 (236)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555556677777777777765
No 5
>2k44_A Hsapbk, K+-channel voltage-sensor paddle domain of calcium-activated potassium channel subunit...; membrane, micelle, solution structure; NMR {Synthetic}
Probab=18.36 E-value=7.8 Score=29.54 Aligned_cols=15 Identities=53% Similarity=1.083 Sum_probs=13.0
Q ss_pred CCcchhhHHHHHHhh
Q 001216 318 LPRNWMHLHFLRAIG 332 (1122)
Q Consensus 318 LPrNWmhlHFLRaiG 332 (1122)
|-+||+-|-||||+-
T Consensus 8 L~~~wlgLRFLRALR 22 (28)
T 2k44_A 8 LNRSWLGLRFLRALR 22 (28)
T ss_dssp HHHHHHHSTTCTTHH
T ss_pred eccchHHHHHHHHHH
Confidence 568999999999974
No 6
>3n3f_A Collagen alpha-1(XV) chain; extracellular matrix, basement membrane, collagen trimerization domain, folding, association, chain selection helix; 2.00A {Homo sapiens}
Probab=16.68 E-value=51 Score=27.79 Aligned_cols=29 Identities=17% Similarity=0.456 Sum_probs=24.3
Q ss_pred HHHH-hcCCcc-eeEEeccccchhhhccCCc
Q 001216 951 ELMR-IYDSPE-SLVILASASDLLLRATDGM 979 (1122)
Q Consensus 951 ELmR-nhd~pE-sLvIlAsASDLLlRATDGM 979 (1122)
+||+ .|+.|| .|+.+..-+||.+|-.||.
T Consensus 11 ~M~~~~~~~~eGtL~yv~d~~eLyiRVr~Gw 41 (54)
T 3n3f_A 11 DMLQKAHLVIEGTFIYLRDSTEFFIRVRDGW 41 (54)
T ss_dssp HHHTTGGGSCTTEEEEETTTTEEEEEETTEE
T ss_pred HHHhhCccCCCeeEEEEEecceEEEEEcCce
Confidence 5777 677777 6888999999999999994
No 7
>3g7r_A Putative transcriptional regulator; TETR, all-helical, structural genomics, PSI-2, protein structure initiative; 1.38A {Streptomyces coelicolor A3}
Probab=16.65 E-value=69 Score=29.34 Aligned_cols=142 Identities=14% Similarity=0.113 Sum_probs=81.8
Q ss_pred HHHHHHhhccccchhhhHHHHHHhhhCCCCCCCcccchhhhhHHHHHHhhhhhhccCccchhhHHHhhhccccccccccc
Q 001216 852 LLRSVLAEKQELCFSVVSLLWNKLIAAPETQPSAESTSAQQGWRQVVDALCNVVSASPTKAATAVVLQAERELQPWIAKD 931 (1122)
Q Consensus 852 lLrSVLaEKQELCFSVVSLLWhkLIaaPEtq~saEsTSAqQGWRQVVDAlCnVVsAsP~KAatavVLQAEr~lQPWIArd 931 (1122)
.+-.-..-|+||=..|+--...++...-+... ....+..+..+.+++++.+.+...|.....-+.+-.| + -..+
T Consensus 71 tlY~~F~sKe~L~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~---~~~~ 144 (221)
T 3g7r_A 71 TLYRHFSGKDDLILAYLDQADRGIRAQVTAAR-GSSPAADGQVRAVARSIVDGIRSPGFRGCAFLNAVAE--Y---PDPA 144 (221)
T ss_dssp HHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHH-HTCSSHHHHHHHHHHHHHHHHTSTTCCSCHHHHHHHH--C---CCTT
T ss_pred HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHH-hcCCCHHHHHHHHHHHHHHHhcccCcCccHHHHHHHH--h---cccc
Confidence 34445667888877777766666543322111 1235667788999999998887666543222222222 1 1233
Q ss_pred cccccchhhhhhHHHHHHHHHHHhcCCcceeEEeccccchhhhccCCceecCCccCcchHHHHHHHHHHHhhhh
Q 001216 932 DDQGQKMWRINQRIVKLIVELMRIYDSPESLVILASASDLLLRATDGMLVDGEACTLPQLELLEATARAIQPIL 1005 (1122)
Q Consensus 932 D~~GQkmWRiNQRIVkLivELmRnhd~pEsLvIlAsASDLLlRATDGMLVDGEACTLPQLELLEatArAvq~vl 1005 (1122)
++..+.+-+..+++...+.++++..+. +=.....++++-..+|+++-.. ..+.-+..+...+.+..++
T Consensus 145 ~~~~~~~~~~~~~~~~~l~~~~~~~g~----~~~~~~a~~l~~~~~G~~~~~~--~~~~~~~~~~~~~~~~~ll 212 (221)
T 3g7r_A 145 HPVHRAVLAHRQWFLDTVTELLAQVGD----GDGVAAGRHLVMLRDGAMAAGC--LFDPELVSETFLHGVEGVL 212 (221)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHTTSS----SCSHHHHHHHHHHHHHHHHHTT--TSCHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHHHHHHHh--hcCchHHHHHHHHHHHHHH
Confidence 444566677888999999999987632 1122345667777777776432 2333444455555444444
No 8
>1qus_A Lytic murein transglycosylase B; alpha-helical protein with AN five-stranded antiparallel beta-sheet, hydrolase; HET: BCN; 1.70A {Escherichia coli} SCOP: d.2.1.6 PDB: 1d0k_A* 1d0m_A* 1qdr_A* 1qdt_A 1d0l_A* 1qut_A* 1ltm_A*
Probab=15.91 E-value=26 Score=37.71 Aligned_cols=36 Identities=31% Similarity=0.353 Sum_probs=28.8
Q ss_pred CCCCCCcc-ccCCCCCCCCCcccCCCc-cee-ecCCeeE
Q 001216 179 GELKPPTI-ASSRGSGKHPQLMLSTPR-WAV-ANGAGVI 214 (1122)
Q Consensus 179 gelkpptt-a~srgsgKHPQLmpSTPr-WAV-ANGAgVI 214 (1122)
|.+.|-++ +|.-|.--|+|+||||=+ |+| .||-|.+
T Consensus 167 g~~~p~~~~GS~aGA~G~~QFmPst~~~yavD~dGDG~~ 205 (322)
T 1qus_A 167 EQDDPLNLKGSFAGAMGYGQFMPSSYKQYAVDFSGDGHI 205 (322)
T ss_dssp TTCCGGGCEECTTCCBTTTTBCHHHHHHHCCCCSSSSCC
T ss_pred cCCChhhccCCcccccCcCccCHHHHHHhccccCCCCcC
Confidence 66666553 578888889999999987 889 5898874
No 9
>1rwu_A Hypothetical UPF0250 protein YBED; mixed alpha-beta fold, structural genomics, protein structure initiative, PSI; NMR {Escherichia coli} SCOP: d.58.54.1
Probab=15.83 E-value=47 Score=30.89 Aligned_cols=30 Identities=17% Similarity=0.255 Sum_probs=22.1
Q ss_pred HHHHHHHHHhccCCCCC--Cchhccccccccc
Q 001216 482 FVATVEAIIKRTFPPES--SPENTRRARHLSG 511 (1122)
Q Consensus 482 FvATVeAIL~RTFP~es--s~Eq~rk~r~~~~ 511 (1122)
|++.|.+|+++.+|.+- +...++|+||.+.
T Consensus 49 ~~~~V~~vv~~~~p~d~~~~~r~Ss~GkY~Sv 80 (109)
T 1rwu_A 49 LVDQVVEVVQRHAPGDYTPTVKPSSKGNYHSV 80 (109)
T ss_dssp HHHHHHHHHHHHSSSCCCEEEEESSCSSEEEE
T ss_pred HHHHHHHHHHHhCCCCCCceecCCCCCeEEEE
Confidence 89999999999888222 2244678888765
No 10
>3v53_A RNA-binding protein 25; PWI, RNA-binding domain; 2.90A {Homo sapiens}
Probab=15.72 E-value=19 Score=34.29 Aligned_cols=40 Identities=28% Similarity=0.547 Sum_probs=26.5
Q ss_pred cccccccccccc--ccccchhhhhhHHHHHHHHHHHhcCCcceeEE
Q 001216 921 ERELQPWIAKDD--DQGQKMWRINQRIVKLIVELMRIYDSPESLVI 964 (1122)
Q Consensus 921 Er~lQPWIArdD--~~GQkmWRiNQRIVkLivELmRnhd~pEsLvI 964 (1122)
++.++|||.+-= =.|.+ -+-+|..|.+.++.|.+|+.|++
T Consensus 44 ~~~lkPWI~kKI~E~LG~e----Ed~LVdfI~~~L~~~~~pk~l~~ 85 (119)
T 3v53_A 44 ERRIRPWINKKIIEYIGEE----EATLVDFVCSKVMAHSSPQSILD 85 (119)
T ss_dssp HHTHHHHHHHHHHHHTC-------CHHHHHHHHHHHTTCCHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCCc----hHHHHHHHHHHHHcCCCHHHHHH
Confidence 578999998720 01110 13478999999999988876653
Done!