Query 020002
Match_columns 332
No_of_seqs 245 out of 794
Neff 4.7
Searched_HMMs 29240
Date Mon Mar 25 10:18:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020002.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020002hhsearch_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 1.3E-38 4.5E-43 281.6 16.8 131 128-261 18-155 (164)
2 1e52_A Excinuclease ABC subuni 97.7 2.4E-05 8.1E-10 59.1 4.0 35 291-325 23-58 (63)
3 2d7d_A Uvrabc system protein B 95.6 0.0057 2E-07 63.3 3.5 34 292-325 626-660 (661)
4 1c4o_A DNA nucleotide excision 94.8 0.0051 1.7E-07 63.7 0.0 36 291-326 610-646 (664)
5 3pxg_A Negative regulator of g 66.3 5.3 0.00018 39.1 4.6 35 292-326 401-436 (468)
6 3syn_E ATP-binding protein YLX 61.7 5.6 0.00019 23.8 2.3 18 307-324 4-21 (23)
7 3v1a_A Computational design, M 55.2 18 0.00062 25.7 4.5 37 290-326 6-43 (48)
8 1yzm_A FYVE-finger-containing 37.3 62 0.0021 23.2 5.0 37 290-326 7-44 (51)
9 1z0k_B FYVE-finger-containing 31.7 77 0.0026 24.0 5.0 37 290-326 25-62 (69)
10 3he5_B Synzip2; heterodimeric 29.7 69 0.0024 22.4 4.0 20 307-326 27-47 (52)
11 1z0j_B FYVE-finger-containing 27.5 1E+02 0.0035 22.7 4.9 37 290-326 14-51 (59)
12 2fzt_A Hypothetical protein TM 24.5 84 0.0029 24.3 4.0 23 293-315 3-26 (79)
13 3nr7_A DNA-binding protein H-N 23.9 1.3E+02 0.0044 23.5 5.2 34 291-324 26-59 (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=1.3e-38 Score=281.56 Aligned_cols=131 Identities=21% Similarity=0.314 Sum_probs=120.3
Q ss_pred CCCcccCCCCCCcEEEEEEcCCCceEEEEEecHHHH-HHHHHcCCCCCCCCCCCHHHHHHHHHHHhCCEEeEEEEEeEEC
Q 020002 128 PQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVRTRDA-KRVAYGGNAQCANCRPTLYQVVKEMIEKMGYEVRLVRVTKRVH 206 (332)
Q Consensus 128 ~q~G~Ld~~a~~p~IVL~~edg~~r~LPI~Ig~~EA-aI~~aL~~~~~~~~RPlThDLl~~iLe~lg~~v~~V~I~~~~d 206 (332)
..++++|+++++|+|||++++++ +.||||||.+|| +|+.++++.+++ ||+|||||.++++++|+++.+|+|++++|
T Consensus 18 v~gi~ld~~~~~pvvvL~~~~g~-r~LPI~Ig~~EA~aI~~~l~~~~~~--RPlThDLl~~il~~lg~~v~~V~I~~l~d 94 (164)
T 1vjl_A 18 VKTLALDRVSNTPVVILGIEGTN-RVLPIWIGACEGHALALAMEKMEFP--RPLTHDLLLSVLESLEARVDKVIIHSLKD 94 (164)
T ss_dssp EEEEEECTTTCCEEEEEEETTSS-EEEEEECCHHHHHHHHHHHHTCCCS--SCCHHHHHHHHHHHTTEEEEEEEEEEEET
T ss_pred EEEEEEcCCCCceEEEEEecCCC-EEEEEEECHHHHHHHHHHhcCCCCC--CCCHHHHHHHHHHHcCCEEEEEEEEEeEC
Confidence 34899999999999999998886 899999999999 999999999999 99999999999999999999999999999
Q ss_pred CEEEEEEEEe------ecCccceEEEEeCChHHHHHHHHHcCCCEEEehhhHhccCeeeee
Q 020002 207 EAYFAQLYLT------KVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIE 261 (332)
Q Consensus 207 GvFyA~L~l~------~~g~~~e~~~IDaRPSDAIaLAlR~k~PIyV~e~Vl~~agi~i~e 261 (332)
|+|||+|+++ +++++.+.+++|+|||||||||+|+++||||+++|++++|+++..
T Consensus 95 gtfyA~L~l~~~~~~~~~~~~~~~~~iDaRPSDAIaLAlR~~~PI~V~e~Vl~~a~i~~~~ 155 (164)
T 1vjl_A 95 NTFYATLVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSDNLVEKHSIELEV 155 (164)
T ss_dssp TEEEEEEEEEECC--------CCEEEEEECHHHHHHHHHHHTCCEEEEHHHHHHHCEECCH
T ss_pred CEEEEEEEEeccccccCCCCcceEEEEECcHHHHHHHHHHHCCCEEEcHHHHhhcCCCCcc
Confidence 9999999999 655333678999999999999999999999999999999998764
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=97.72 E-value=2.4e-05 Score=59.12 Aligned_cols=35 Identities=26% Similarity=0.457 Sum_probs=31.2
Q ss_pred hhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhh
Q 020002 291 TKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK 325 (332)
Q Consensus 291 ~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~ 325 (332)
.+.+..|++.|++|.+ ++||+||++||+|+.|+.+
T Consensus 23 ~~~i~~Le~~M~~AA~~leFE~AA~lRD~I~~L~~~ 58 (63)
T 1e52_A 23 QQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLREL 58 (63)
T ss_dssp HHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHH
Confidence 4567889999999988 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=95.62 E-value=0.0057 Score=63.25 Aligned_cols=34 Identities=26% Similarity=0.326 Sum_probs=24.5
Q ss_pred hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhh
Q 020002 292 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK 325 (332)
Q Consensus 292 ~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~ 325 (332)
+.++.|+++|++|.+ ++||+||+|||+|+.|+++
T Consensus 626 ~~i~~l~~~m~~aa~~~~fe~Aa~~Rd~i~~l~~~ 660 (661)
T 2d7d_A 626 KVVEQMEHEMKEAAKALDFERAAELRDLLLELKAE 660 (661)
T ss_dssp HHHHHHHHHHHHHHHTTCHHHHHHHHHHC------
T ss_pred HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHhc
Confidence 446778888888887 9999999999999999754
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=94.79 E-value=0.0051 Score=63.69 Aligned_cols=36 Identities=22% Similarity=0.297 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020002 291 TKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 326 (332)
Q Consensus 291 ~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 326 (332)
.+.++.|++.|++|.+ ++||+||+|||+|+.|+++.
T Consensus 610 ~~~i~~l~~~m~~aa~~l~fe~Aa~lRd~i~~l~~~~ 646 (664)
T 1c4o_A 610 RERIAELELAMWQAAEALDFERAARLRDEIRALEARL 646 (664)
T ss_dssp -------------------------------------
T ss_pred HHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHH
Confidence 4567888888888887 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=66.31 E-value=5.3 Score=39.12 Aligned_cols=35 Identities=31% Similarity=0.409 Sum_probs=28.5
Q ss_pred hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020002 292 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 326 (332)
Q Consensus 292 ~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 326 (332)
.+++.++.....++. ++|++|+.+++++.+++++.
T Consensus 401 ~~i~~l~~~~~~~~~~~d~~~~~~l~~~~~~~~~~~ 436 (468)
T 3pxg_A 401 QKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQV 436 (468)
T ss_dssp HHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHH
Confidence 445667777777787 99999999999999998665
No 6
>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=61.71 E-value=5.6 Score=23.85 Aligned_cols=18 Identities=33% Similarity=0.497 Sum_probs=15.4
Q ss_pred hhhHHHHHHHHHHHhHHh
Q 020002 307 ERYRDAAQWRDKLGQLRA 324 (332)
Q Consensus 307 E~YE~AA~lRDeI~~l~~ 324 (332)
.+|++||.+|.++.+++.
T Consensus 4 nrydqaatlrakmekrer 21 (23)
T 3syn_E 4 NRYDQAATLRAKMEKRER 21 (26)
T ss_pred chHHHHHHHHHHHHHHhh
Confidence 589999999999988763
No 7
>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=55.16 E-value=18 Score=25.68 Aligned_cols=37 Identities=14% Similarity=0.200 Sum_probs=32.7
Q ss_pred chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020002 290 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 326 (332)
Q Consensus 290 ~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 326 (332)
...++.+++.+++.|.. -+||+.+.|..-|+.|+.+.
T Consensus 6 L~EQ~~~I~~~I~qAk~~rRfdEV~~L~~NL~EL~~E~ 43 (48)
T 3v1a_A 6 LAQQIKNIHSFIHQAKAAGRMDEVRTLQENLHQLMHEY 43 (48)
T ss_dssp HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHH
Confidence 45778999999999998 99999999999999997654
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=37.34 E-value=62 Score=23.18 Aligned_cols=37 Identities=14% Similarity=0.214 Sum_probs=31.7
Q ss_pred chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020002 290 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 326 (332)
Q Consensus 290 ~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 326 (332)
...++..+++++++|.. -+|++.+.|-.-|+.|+...
T Consensus 7 L~EQ~~~I~~~I~qAk~~~r~DEV~~Le~NLrEL~~ei 44 (51)
T 1yzm_A 7 LLQQIHNITSFIRQAKAAGRMDEVRTLQENLRQLQDEY 44 (51)
T ss_dssp HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHH
Confidence 35778899999999998 99999999988888887654
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=31.72 E-value=77 Score=24.02 Aligned_cols=37 Identities=14% Similarity=0.214 Sum_probs=32.4
Q ss_pred chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020002 290 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 326 (332)
Q Consensus 290 ~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 326 (332)
..+++..++.++++|.+ -+||+.+.|-.-|+.|++..
T Consensus 25 L~EQ~~~I~~yI~qAk~~~r~DEV~tLe~NLrEL~~ei 62 (69)
T 1z0k_B 25 LLQQIHNITSFIRQAKAAGRMDEVRTLQENLRQLQDEY 62 (69)
T ss_dssp HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence 46788999999999998 99999999988888887654
No 10
>3he5_B Synzip2; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}
Probab=29.66 E-value=69 Score=22.42 Aligned_cols=20 Identities=20% Similarity=0.388 Sum_probs=14.5
Q ss_pred hhhHH-HHHHHHHHHhHHhhh
Q 020002 307 ERYRD-AAQWRDKLGQLRAKR 326 (332)
Q Consensus 307 E~YE~-AA~lRDeI~~l~~~~ 326 (332)
.+.|+ -|.+||||.+|+.+.
T Consensus 27 qnlekiianlrdeiarlenev 47 (52)
T 3he5_B 27 QNLEKIIANLRDEIARLENEV 47 (52)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHH
Confidence 34443 478999999998754
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=27.53 E-value=1e+02 Score=22.69 Aligned_cols=37 Identities=11% Similarity=0.230 Sum_probs=32.1
Q ss_pred chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHhHHhhh
Q 020002 290 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 326 (332)
Q Consensus 290 ~~~e~~~L~~~L~~aie-E~YE~AA~lRDeI~~l~~~~ 326 (332)
..+++..++++++.|.. -+|++.+.|-.-|+.|++..
T Consensus 14 L~EQi~~I~~yI~qAk~~~R~DEV~~Le~NLrEL~~ei 51 (59)
T 1z0j_B 14 LLQQIDNIKAYIFDAKQCGRLDEVEVLTENLRELKHTL 51 (59)
T ss_dssp HHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHH
Confidence 35788999999999998 99999999998888887654
No 12
>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=24.47 E-value=84 Score=24.34 Aligned_cols=23 Identities=17% Similarity=0.297 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHHHH-hhhHHHHHH
Q 020002 293 EFNLVRNMLIAAVE-ERYRDAAQW 315 (332)
Q Consensus 293 e~~~L~~~L~~aie-E~YE~AA~l 315 (332)
++.++..+...||| |+||.--.|
T Consensus 3 ~I~EIEk~ID~aIE~edyE~L~~L 26 (79)
T 2fzt_A 3 NIDEIERKIDEAIEKEDYETLLSL 26 (79)
T ss_dssp CHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred cHHHHHHHHHHHHHHhhHHHHHHH
Confidence 46778899999998 999975555
No 13
>3nr7_A DNA-binding protein H-NS; dimer, oligomerisation, DNA condensation; 3.70A {Salmonella enterica subsp} PDB: 1lr1_A 1ni8_A
Probab=23.89 E-value=1.3e+02 Score=23.46 Aligned_cols=34 Identities=12% Similarity=0.115 Sum_probs=22.1
Q ss_pred hhhHHHHHHHHHHHHHhhhHHHHHHHHHHHhHHh
Q 020002 291 TKEFNLVRNMLIAAVEERYRDAAQWRDKLGQLRA 324 (332)
Q Consensus 291 ~~e~~~L~~~L~~aieE~YE~AA~lRDeI~~l~~ 324 (332)
-.+++.+.+.|..+|+|+=|++...+-+...++.
T Consensus 26 le~Lee~leKl~~VveERree~~~~~~~~~er~~ 59 (86)
T 3nr7_A 26 LETLEEMLEKLEVVVNERREEESAAAAEVEERTR 59 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556677778888888776666666555555443
Done!