Query 020114
Match_columns 331
No_of_seqs 260 out of 807
Neff 4.7
Searched_HMMs 29240
Date Mon Mar 25 12:00:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020114.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020114hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1vjl_A Hypothetical protein TM 100.0 5E-39 1.7E-43 284.2 17.4 132 128-260 18-155 (164)
2 1e52_A Excinuclease ABC subuni 97.8 1.9E-05 6.6E-10 59.5 4.9 36 289-324 22-58 (63)
3 2d7d_A Uvrabc system protein B 95.8 0.0048 1.6E-07 63.9 3.5 35 290-324 625-660 (661)
4 1c4o_A DNA nucleotide excision 95.0 0.0043 1.5E-07 64.2 0.0 37 289-325 609-646 (664)
5 3pxg_A Negative regulator of g 68.3 4.5 0.00015 39.6 4.5 36 290-325 400-436 (468)
6 3v1a_A Computational design, M 66.8 8.8 0.0003 27.3 4.5 38 288-325 5-43 (48)
7 3syn_E ATP-binding protein YLX 64.1 4.9 0.00017 24.0 2.3 18 306-323 4-21 (23)
8 1yzm_A FYVE-finger-containing 39.8 41 0.0014 24.1 4.3 38 288-325 6-44 (51)
9 1z0k_B FYVE-finger-containing 35.7 67 0.0023 24.3 5.2 38 288-325 24-62 (69)
10 2fzt_A Hypothetical protein TM 30.1 62 0.0021 25.0 4.2 25 292-316 3-28 (79)
11 1z0j_B FYVE-finger-containing 28.2 99 0.0034 22.7 4.9 38 288-325 13-51 (59)
12 3he5_B Synzip2; heterodimeric 24.7 1.7E+02 0.0059 20.3 5.3 20 306-325 27-47 (52)
13 3nr7_A DNA-binding protein H-N 21.8 1.7E+02 0.0058 22.7 5.5 35 290-324 26-60 (86)
No 1
>1vjl_A Hypothetical protein TM0160; structural genomics, joint center for structural genomics, J protein structure initiative, PSI; 1.90A {Thermotoga maritima} SCOP: d.257.1.1 PDB: 1sj5_A
Probab=100.00 E-value=5e-39 Score=284.17 Aligned_cols=132 Identities=23% Similarity=0.348 Sum_probs=121.3
Q ss_pred CCCccCCCCCCCcEEEEEeeCCCceEEEEEEChHHHHHHHHHHcccCCCCCChhHHHHHHHHHhCCeEeEEEEEeeECCE
Q 020114 128 PQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEA 207 (331)
Q Consensus 128 ~q~gaLd~~a~~pvIVL~~edg~~r~LPI~Ig~~EA~aI~~aL~~~~~~RPlThDLL~eiLe~lg~~v~~V~I~~l~dGv 207 (331)
..++++|.++++|+|||++++++ |+||||||..||.+|+.++++.+++||+|||||.++++++|+++.+|+|++++||+
T Consensus 18 v~gi~ld~~~~~pvvvL~~~~g~-r~LPI~Ig~~EA~aI~~~l~~~~~~RPlThDLl~~il~~lg~~v~~V~I~~l~dgt 96 (164)
T 1vjl_A 18 VKTLALDRVSNTPVVILGIEGTN-RVLPIWIGACEGHALALAMEKMEFPRPLTHDLLLSVLESLEARVDKVIIHSLKDNT 96 (164)
T ss_dssp EEEEEECTTTCCEEEEEEETTSS-EEEEEECCHHHHHHHHHHHHTCCCSSCCHHHHHHHHHHHTTEEEEEEEEEEEETTE
T ss_pred EEEEEEcCCCCceEEEEEecCCC-EEEEEEECHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCEEEEEEEEEeECCE
Confidence 34899999999999999998876 89999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEe------ecCccceEEEEeCChHHHHHHHHHcCCCEEEehhhHhhcCeeeee
Q 020114 208 YFAQLYLT------KVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIE 260 (331)
Q Consensus 208 FyA~L~l~------~~g~~~e~~~IDaRPSDAIaLAlR~k~PIyV~eeVl~~agi~v~e 260 (331)
|||+|+++ +++++.+..++|+||||||+||+|+++||||+|+|++++|+++.+
T Consensus 97 fyA~L~l~~~~~~~~~~~~~~~~~iDaRPSDAIaLAlR~~~PI~V~e~Vl~~a~i~~~~ 155 (164)
T 1vjl_A 97 FYATLVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSDNLVEKHSIELEV 155 (164)
T ss_dssp EEEEEEEEECC--------CCEEEEEECHHHHHHHHHHHTCCEEEEHHHHHHHCEECCH
T ss_pred EEEEEEEeccccccCCCCcceEEEEECcHHHHHHHHHHHCCCEEEcHHHHhhcCCCCcc
Confidence 99999999 654333678999999999999999999999999999999998864
No 2
>1e52_A Excinuclease ABC subunit; DNA excision repair, UVRB, DNA repair, UVRC binding domain; NMR {Escherichia coli} SCOP: a.2.9.1 PDB: 1qoj_A
Probab=97.82 E-value=1.9e-05 Score=59.54 Aligned_cols=36 Identities=25% Similarity=0.408 Sum_probs=31.9
Q ss_pred chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhh
Q 020114 289 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK 324 (331)
Q Consensus 289 ~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~ 324 (331)
....++.|++.|.+|.+ ++||+||+|||+|+.|+.+
T Consensus 22 ~~~~i~~Le~~M~~AA~~leFE~AA~lRD~I~~L~~~ 58 (63)
T 1e52_A 22 LQQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLREL 58 (63)
T ss_dssp HHHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHH
Confidence 35668889999999998 9999999999999999865
No 3
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*
Probab=95.76 E-value=0.0048 Score=63.87 Aligned_cols=35 Identities=26% Similarity=0.317 Sum_probs=25.4
Q ss_pred hhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhh
Q 020114 290 TKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK 324 (331)
Q Consensus 290 ~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~ 324 (331)
.+.++.|+++|++|.+ ++||+||+|||+|+.|+++
T Consensus 625 ~~~i~~l~~~m~~aa~~~~fe~Aa~~Rd~i~~l~~~ 660 (661)
T 2d7d_A 625 QKVVEQMEHEMKEAAKALDFERAAELRDLLLELKAE 660 (661)
T ss_dssp HHHHHHHHHHHHHHHHTTCHHHHHHHHHHC------
T ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHhc
Confidence 3457778888888888 9999999999999999854
No 4
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A*
Probab=94.95 E-value=0.0043 Score=64.22 Aligned_cols=37 Identities=22% Similarity=0.253 Sum_probs=0.0
Q ss_pred chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020114 289 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 325 (331)
Q Consensus 289 ~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 325 (331)
..+.++.|+++|++|.+ ++||+||+|||+|++|+++.
T Consensus 609 ~~~~i~~l~~~m~~aa~~l~fe~Aa~lRd~i~~l~~~~ 646 (664)
T 1c4o_A 609 LRERIAELELAMWQAAEALDFERAARLRDEIRALEARL 646 (664)
T ss_dssp --------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHH
Confidence 34567889998888887 99999999999999998764
No 5
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}
Probab=68.30 E-value=4.5 Score=39.64 Aligned_cols=36 Identities=31% Similarity=0.397 Sum_probs=29.3
Q ss_pred hhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020114 290 TKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 325 (331)
Q Consensus 290 ~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 325 (331)
..+++.|+...+.++. ++|++|+.|++++.+++++.
T Consensus 400 ~~~i~~l~~~~~~~~~~~d~~~~~~l~~~~~~~~~~~ 436 (468)
T 3pxg_A 400 EQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQV 436 (468)
T ss_dssp HHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHH
Confidence 3456667777777887 99999999999999998654
No 6
>3v1a_A Computational design, MID1-APO1; helix-turn-helix, metal binding, homodimer, de novo protein, binding protein; 0.98A {Artificial gene} PDB: 3v1b_A* 3v1c_A* 3v1d_A* 3v1f_A* 3v1e_A
Probab=66.78 E-value=8.8 Score=27.27 Aligned_cols=38 Identities=13% Similarity=0.175 Sum_probs=33.4
Q ss_pred cchhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020114 288 LDTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 325 (331)
Q Consensus 288 ~~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 325 (331)
....++.+++.+++.|.. -+||+.+.|..-|+.|+.+-
T Consensus 5 PL~EQ~~~I~~~I~qAk~~rRfdEV~~L~~NL~EL~~E~ 43 (48)
T 3v1a_A 5 PLAQQIKNIHSFIHQAKAAGRMDEVRTLQENLHQLMHEY 43 (48)
T ss_dssp HHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHH
Confidence 356788999999999998 99999999999999997654
No 7
>3syn_E ATP-binding protein YLXH; SRP GTPase, flagellum, protein transport, biosynthetic prote GTPase activating protein, type 3 secretion system; HET: GDP; 3.06A {Bacillus subtilis}
Probab=64.11 E-value=4.9 Score=24.00 Aligned_cols=18 Identities=33% Similarity=0.497 Sum_probs=15.3
Q ss_pred hhhHHHHHHHHHHHhHHh
Q 020114 306 ERYRDAAQWRDKLGQLRA 323 (331)
Q Consensus 306 E~YE~AA~lRDeI~~l~~ 323 (331)
.+|++||.||.++.+++.
T Consensus 4 nrydqaatlrakmekrer 21 (23)
T 3syn_E 4 NRYDQAATLRAKMEKRER 21 (26)
T ss_pred chHHHHHHHHHHHHHHhh
Confidence 589999999999887763
No 8
>1yzm_A FYVE-finger-containing RAB5 effector protein rabenosyn-5; RAB GTPase, vesicular trafficking, protein transport; 1.50A {Homo sapiens} SCOP: a.2.19.1
Probab=39.77 E-value=41 Score=24.09 Aligned_cols=38 Identities=13% Similarity=0.189 Sum_probs=32.5
Q ss_pred cchhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020114 288 LDTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 325 (331)
Q Consensus 288 ~~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 325 (331)
....++..++.++++|.. -+|++.+.|-.-|+.|+...
T Consensus 6 PL~EQ~~~I~~~I~qAk~~~r~DEV~~Le~NLrEL~~ei 44 (51)
T 1yzm_A 6 PLLQQIHNITSFIRQAKAAGRMDEVRTLQENLRQLQDEY 44 (51)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHH
Confidence 346788999999999998 99999999988888887653
No 9
>1z0k_B FYVE-finger-containing RAB5 effector protein rabenosyn-5; RAB gtpases, effector complex, vesicular trafficking, protein transport; HET: GTP MES; 1.92A {Homo sapiens} SCOP: a.2.19.1
Probab=35.66 E-value=67 Score=24.30 Aligned_cols=38 Identities=13% Similarity=0.189 Sum_probs=33.3
Q ss_pred cchhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020114 288 LDTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 325 (331)
Q Consensus 288 ~~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 325 (331)
...+++..++.++++|.+ -+||+.+.|-.-|+.|++..
T Consensus 24 PL~EQ~~~I~~yI~qAk~~~r~DEV~tLe~NLrEL~~ei 62 (69)
T 1z0k_B 24 PLLQQIHNITSFIRQAKAAGRMDEVRTLQENLRQLQDEY 62 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence 467889999999999998 99999999988888887654
No 10
>2fzt_A Hypothetical protein TM0693; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 2.05A {Thermotoga maritima} SCOP: a.46.3.1 PDB: 2g42_A
Probab=30.09 E-value=62 Score=25.01 Aligned_cols=25 Identities=16% Similarity=0.274 Sum_probs=19.7
Q ss_pred hHHHHHHHHHHHHH-hhhHHHHHHHH
Q 020114 292 EFNLVRNMLIAAVE-ERYRDAAQWRD 316 (331)
Q Consensus 292 e~~~L~~~L~~aie-E~YE~AA~lRD 316 (331)
++.++.++.+.||+ |+||.--.|=+
T Consensus 3 ~I~EIEk~ID~aIE~edyE~L~~LL~ 28 (79)
T 2fzt_A 3 NIDEIERKIDEAIEKEDYETLLSLLN 28 (79)
T ss_dssp CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 46778899999999 99997655533
No 11
>1z0j_B FYVE-finger-containing RAB5 effector protein RABE, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Homo sapiens} SCOP: a.2.19.1
Probab=28.17 E-value=99 Score=22.72 Aligned_cols=38 Identities=13% Similarity=0.259 Sum_probs=32.9
Q ss_pred cchhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020114 288 LDTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 325 (331)
Q Consensus 288 ~~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 325 (331)
....++..++.+++.|.. -+|++.+.|-.-|+.|++..
T Consensus 13 pL~EQi~~I~~yI~qAk~~~R~DEV~~Le~NLrEL~~ei 51 (59)
T 1z0j_B 13 LLLQQIDNIKAYIFDAKQCGRLDEVEVLTENLRELKHTL 51 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHH
Confidence 356788999999999998 99999999998888887654
No 12
>3he5_B Synzip2; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}
Probab=24.73 E-value=1.7e+02 Score=20.34 Aligned_cols=20 Identities=20% Similarity=0.388 Sum_probs=14.6
Q ss_pred hhhHH-HHHHHHHHHhHHhhh
Q 020114 306 ERYRD-AAQWRDKLGQLRAKR 325 (331)
Q Consensus 306 E~YE~-AA~lRDeI~~l~~~~ 325 (331)
.+.|+ -|.+||||.+|+.+.
T Consensus 27 qnlekiianlrdeiarlenev 47 (52)
T 3he5_B 27 QNLEKIIANLRDEIARLENEV 47 (52)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHH
Confidence 44444 478999999998754
No 13
>3nr7_A DNA-binding protein H-NS; dimer, oligomerisation, DNA condensation; 3.70A {Salmonella enterica subsp} PDB: 1lr1_A 1ni8_A
Probab=21.85 E-value=1.7e+02 Score=22.73 Aligned_cols=35 Identities=14% Similarity=0.142 Sum_probs=22.5
Q ss_pred hhhHHHHHHHHHHHHHhhhHHHHHHHHHHHhHHhh
Q 020114 290 TKEFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAK 324 (331)
Q Consensus 290 ~~e~~~L~~~L~~aieE~YE~AA~lRDeI~~l~~~ 324 (331)
-.+++.+.+.|..+|+|+=|++...+-+...++.+
T Consensus 26 le~Lee~leKl~~VveERree~~~~~~~~~er~~K 60 (86)
T 3nr7_A 26 LETLEEMLEKLEVVVNERREEESAAAAEVEERTRK 60 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566677778888887766666665555554433
Done!