Query 027663
Match_columns 220
No_of_seqs 219 out of 815
Neff 5.8
Searched_HMMs 29240
Date Mon Mar 25 22:43:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027663.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/027663hhsearch_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 1.8E-42 6.2E-47 286.3 17.3 139 8-149 11-155 (164)
2 1e52_A Excinuclease ABC subuni 98.0 6.7E-06 2.3E-10 57.5 4.0 36 178-213 22-58 (63)
3 2d7d_A Uvrabc system protein B 96.1 0.003 1E-07 61.2 3.5 35 179-213 625-660 (661)
4 1c4o_A DNA nucleotide excision 95.4 0.0027 9.1E-08 61.6 0.0 37 178-214 609-646 (664)
5 3pxg_A Negative regulator of g 72.1 3.8 0.00013 37.5 4.6 35 180-214 401-436 (468)
6 3syn_E ATP-binding protein YLX 62.4 6 0.00021 21.4 2.3 17 195-211 4-20 (23)
7 3he5_B Synzip2; heterodimeric 54.8 35 0.0012 21.7 5.3 19 195-213 27-46 (52)
8 3v1a_A Computational design, M 52.8 26 0.00089 22.7 4.6 39 177-215 5-44 (48)
9 1bb1_A Designed, thermostable 37.8 27 0.00091 20.7 2.6 16 196-212 8-23 (36)
10 2r2v_A GCN4 leucine zipper; co 33.4 75 0.0026 19.0 4.1 27 182-212 3-29 (34)
11 2fzt_A Hypothetical protein TM 28.5 74 0.0025 22.5 4.1 23 181-203 3-26 (79)
12 3zzy_A Polypyrimidine tract-bi 25.7 1.2E+02 0.0042 22.9 5.4 39 65-105 37-75 (130)
13 2e5i_A Heterogeneous nuclear r 24.9 98 0.0033 23.1 4.6 38 65-105 34-71 (124)
14 3hho_A CO-chaperone protein HS 23.7 1E+02 0.0036 24.3 4.8 24 180-203 127-151 (174)
15 1z0k_B FYVE-finger-containing 22.5 1.7E+02 0.0058 20.2 5.0 40 176-215 23-63 (69)
16 1yzm_A FYVE-finger-containing 20.9 1.6E+02 0.0055 19.1 4.4 38 177-214 6-44 (51)
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=1.8e-42 Score=286.28 Aligned_cols=139 Identities=24% Similarity=0.355 Sum_probs=126.1
Q ss_pred ceeEEeecCCCCCccCCCCCCcEEEEEEeCCCceEEEEEEccHHHHHHHHHhccCCCCCCChHHHHHHHHHHhCCeEeEE
Q 027663 8 RHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLV 87 (220)
Q Consensus 8 ~~~~~~~~~~~~g~l~~~~~~pvlvL~~~~~~~r~LPI~Ig~~eA~aI~~~l~~~~~~RPlThDLl~~vl~~lg~~v~~V 87 (220)
.||+-..| .++++|+.+++|+|||++++++ |+||||||.+||++|+.++++..++||+|||||.++++++|.++.+|
T Consensus 11 ~~~~~~~v--~gi~ld~~~~~pvvvL~~~~g~-r~LPI~Ig~~EA~aI~~~l~~~~~~RPlThDLl~~il~~lg~~v~~V 87 (164)
T 1vjl_A 11 HHMRKAWV--KTLALDRVSNTPVVILGIEGTN-RVLPIWIGACEGHALALAMEKMEFPRPLTHDLLLSVLESLEARVDKV 87 (164)
T ss_dssp -CEEEEEE--EEEEECTTTCCEEEEEEETTSS-EEEEEECCHHHHHHHHHHHHTCCCSSCCHHHHHHHHHHHTTEEEEEE
T ss_pred hceeEEEE--EEEEEcCCCCceEEEEEecCCC-EEEEEEECHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCEEEEE
Confidence 35666777 8899999999999999998886 89999999999999999999999999999999999999999999999
Q ss_pred EEEeeECCEEEEEEEEe------ecCccceEEEEeCChHHHHHHHHHcCCCEEEehhhhhhcCeeeee
Q 027663 88 RVTKRVHEAYFAQLYLT------KVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIE 149 (220)
Q Consensus 88 ~I~~~~dGvf~A~L~l~------~~~~~~~~~~iDaRPSDAIaLAlr~~~PIyV~e~Vl~~~~i~~~~ 149 (220)
+|++++||+|||+|+|+ +++++.+..++|||||||||||+|+++||||+++|++++|++++.
T Consensus 88 ~I~~l~dgtfyA~L~l~~~~~~~~~~~~~~~~~iDaRPSDAIaLAlR~~~PI~V~e~Vl~~a~i~~~~ 155 (164)
T 1vjl_A 88 IIHSLKDNTFYATLVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSDNLVEKHSIELEV 155 (164)
T ss_dssp EEEEEETTEEEEEEEEEECC--------CCEEEEEECHHHHHHHHHHHTCCEEEEHHHHHHHCEECCH
T ss_pred EEEEeECCEEEEEEEEeccccccCCCCcceEEEEECcHHHHHHHHHHHCCCEEEcHHHHhhcCCCCcc
Confidence 99999999999999999 654223578999999999999999999999999999999998864
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=97.95 E-value=6.7e-06 Score=57.47 Aligned_cols=36 Identities=25% Similarity=0.408 Sum_probs=32.0
Q ss_pred chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHh
Q 027663 178 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK 213 (220)
Q Consensus 178 ~~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~ 213 (220)
....+..|++.|++|.+ ++||+||++||+|+.++..
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 34667889999999998 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=96.09 E-value=0.003 Score=61.19 Aligned_cols=35 Identities=26% Similarity=0.317 Sum_probs=25.8
Q ss_pred hhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHh
Q 027663 179 TKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK 213 (220)
Q Consensus 179 ~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~ 213 (220)
...+..|+++|++|.+ ++||+||++||+|+.|+++
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 3556789999999998 9999999999999999753
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=95.39 E-value=0.0027 Score=61.58 Aligned_cols=37 Identities=22% Similarity=0.253 Sum_probs=0.0
Q ss_pred chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663 178 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 214 (220)
Q Consensus 178 ~~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~ 214 (220)
..+.++.|++.|++|.+ ++||+||+|||+|+.|+++.
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 44667889999999997 99999999999999998653
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=72.10 E-value=3.8 Score=37.51 Aligned_cols=35 Identities=31% Similarity=0.409 Sum_probs=28.5
Q ss_pred hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663 180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 214 (220)
Q Consensus 180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~ 214 (220)
..++.|+...+.++. +||++|+.+++++..++++.
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 455667777777887 99999999999999998654
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=62.43 E-value=6 Score=21.39 Aligned_cols=17 Identities=35% Similarity=0.538 Sum_probs=14.5
Q ss_pred hhhHHHHHHHHHHHHHH
Q 027663 195 ERYRDAAQWRDKLGQLR 211 (220)
Q Consensus 195 E~YE~Aa~iRDei~~~~ 211 (220)
..|.+||-+|..+.+++
T Consensus 4 nrydqaatlrakmekre 20 (23)
T 3syn_E 4 NRYDQAATLRAKMEKRE 20 (26)
T ss_pred chHHHHHHHHHHHHHHh
Confidence 47999999999888775
No 7
>3he5_B Synzip2; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}
Probab=54.83 E-value=35 Score=21.73 Aligned_cols=19 Identities=21% Similarity=0.443 Sum_probs=14.2
Q ss_pred hhhHH-HHHHHHHHHHHHHh
Q 027663 195 ERYRD-AAQWRDKLGQLRAK 213 (220)
Q Consensus 195 E~YE~-Aa~iRDei~~~~~~ 213 (220)
.+.|+ -|.+||||.+++.+
T Consensus 27 qnlekiianlrdeiarlene 46 (52)
T 3he5_B 27 QNLEKIIANLRDEIARLENE 46 (52)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 44444 47899999999865
No 8
>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=52.77 E-value=26 Score=22.70 Aligned_cols=39 Identities=13% Similarity=0.144 Sum_probs=33.6
Q ss_pred cchhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhhh
Q 027663 177 LDTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKRN 215 (220)
Q Consensus 177 ~~~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~~ 215 (220)
+...++..++.++++|.. -.||+.+.|..=++.|+.+..
T Consensus 5 PL~EQ~~~I~~~I~qAk~~rRfdEV~~L~~NL~EL~~E~~ 44 (48)
T 3v1a_A 5 PLAQQIKNIHSFIHQAKAAGRMDEVRTLQENLHQLMHEYF 44 (48)
T ss_dssp HHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHH
Confidence 456778899999999998 999999999998888877653
No 9
>1bb1_A Designed, thermostable heterotrimeric coiled coil; de novo protein design; 1.80A {Synthetic construct} SCOP: k.7.1.1 PDB: 1bb1_C 1u0i_B
Probab=37.83 E-value=27 Score=20.73 Aligned_cols=16 Identities=19% Similarity=0.572 Sum_probs=8.3
Q ss_pred hhHHHHHHHHHHHHHHH
Q 027663 196 RYRDAAQWRDKLGQLRA 212 (220)
Q Consensus 196 ~YE~Aa~iRDei~~~~~ 212 (220)
+||+|| +..||...+.
T Consensus 8 eyeqaa-ikeeiaaikd 23 (36)
T 1bb1_A 8 EYEQAA-IKEEIAAIKD 23 (36)
T ss_dssp HHHHHH-HHHHHHHHHH
T ss_pred HHHHHH-HHHHHHHHHH
Confidence 466665 3445544443
No 10
>2r2v_A GCN4 leucine zipper; coiled coils, anti-parallel tetramer, protein design, de novo protein; HET: CIT; 1.90A {Saccharomyces cerevisiae} SCOP: h.1.3.1
Probab=33.37 E-value=75 Score=19.02 Aligned_cols=27 Identities=19% Similarity=0.356 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 027663 182 FNLVRNMLIAAVEERYRDAAQWRDKLGQLRA 212 (220)
Q Consensus 182 ~~~l~~~l~~ai~E~YE~Aa~iRDei~~~~~ 212 (220)
+..|..++++.+.+.|+.| +|+.|+++
T Consensus 3 MnQledKvEel~~~~~~l~----nEv~Rl~~ 29 (34)
T 2r2v_A 3 LKQVADKLEEVASKLYHNA----NELARVAK 29 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHH----HHHHHHHH
T ss_pred hhHHHHHHHHHHHHhHHHH----HHHHHHHH
Confidence 3567788888888888876 45566654
No 11
>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=28.54 E-value=74 Score=22.48 Aligned_cols=23 Identities=17% Similarity=0.297 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHHH-hhhHHHHHH
Q 027663 181 EFNLVRNMLIAAVE-ERYRDAAQW 203 (220)
Q Consensus 181 ~~~~l~~~l~~ai~-E~YE~Aa~i 203 (220)
++.+++.+.+.||+ ||||.--.+
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 35678899999998 999976555
No 12
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A
Probab=25.74 E-value=1.2e+02 Score=22.89 Aligned_cols=39 Identities=18% Similarity=0.244 Sum_probs=31.0
Q ss_pred CCCChHHHHHHHHHHhCCeEeEEEEEeeECCEEEEEEEEee
Q 027663 65 ARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTK 105 (220)
Q Consensus 65 ~RPlThDLl~~vl~~lg~~v~~V~I~~~~dGvf~A~L~l~~ 105 (220)
+.+.|.|.|.+++..+|. |.+|.|.. +..-|+|-+.+..
T Consensus 37 ~~~vte~~L~~lFs~yG~-V~~V~i~~-~~~gfqAFVef~~ 75 (130)
T 3zzy_A 37 FYPVTLDVLHQIFSKFGT-VLKIITFT-KNNQFQALLQYAD 75 (130)
T ss_dssp CSCCCHHHHHHHHTTSSC-EEEEEEEE-ETTEEEEEEEESC
T ss_pred CCCCCHHHHHHHHhCcCC-EEEEEEEc-CCCCcEEEEEECC
Confidence 467899999999999975 88888865 4567888888854
No 13
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}
Probab=24.85 E-value=98 Score=23.07 Aligned_cols=38 Identities=16% Similarity=0.159 Sum_probs=28.8
Q ss_pred CCCChHHHHHHHHHHhCCeEeEEEEEeeECCEEEEEEEEee
Q 027663 65 ARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTK 105 (220)
Q Consensus 65 ~RPlThDLl~~vl~~lg~~v~~V~I~~~~dGvf~A~L~l~~ 105 (220)
+.+.|.+-|.+++..+|. |.+|.|.. +.| |+|-+.+..
T Consensus 34 ~~~vt~~~L~~~Fs~yG~-V~~v~i~~-~~G-f~aFVef~~ 71 (124)
T 2e5i_A 34 LYPITVDVLYTVCNPVGK-VQRIVIFK-RNG-IQAMVEFES 71 (124)
T ss_dssp CSCCCHHHHHHHHTTTSC-EEEEEEEE-SSS-EEEEEEESS
T ss_pred CCCCCHHHHHHHHHhcCC-EEEEEEEe-CCC-CEEEEEECC
Confidence 356788899999999975 88888865 334 678887754
No 14
>3hho_A CO-chaperone protein HSCB homolog; structural genomics, IDP01304, center for structural genomics of infectious diseases, CSGI; 2.15A {Vibrio cholerae}
Probab=23.73 E-value=1e+02 Score=24.28 Aligned_cols=24 Identities=13% Similarity=-0.022 Sum_probs=17.8
Q ss_pred hhHHHHHHHHHHHHH-hhhHHHHHH
Q 027663 180 KEFNLVRNMLIAAVE-ERYRDAAQW 203 (220)
Q Consensus 180 ~~~~~l~~~l~~ai~-E~YE~Aa~i 203 (220)
..+..+.+.|.++.+ .+|+.|+.+
T Consensus 127 ~~~~~~~~~l~~~~~~~d~~~A~~~ 151 (174)
T 3hho_A 127 AMQRHYLAQLQGQLAQSEWLAAADQ 151 (174)
T ss_dssp HHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcCcHHHHHHH
Confidence 344556677788887 999999865
No 15
>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=22.50 E-value=1.7e+02 Score=20.18 Aligned_cols=40 Identities=13% Similarity=0.171 Sum_probs=33.7
Q ss_pred CcchhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhhh
Q 027663 176 CLDTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKRN 215 (220)
Q Consensus 176 ~~~~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~~ 215 (220)
.....++..++..+++|.. -+|++.+.|-.=++.|+++..
T Consensus 23 dPL~EQ~~~I~~yI~qAk~~~r~DEV~tLe~NLrEL~~ei~ 63 (69)
T 1z0k_B 23 DPLLQQIHNITSFIRQAKAAGRMDEVRTLQENLRQLQDEYD 63 (69)
T ss_dssp SHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHH
Confidence 3566788999999999998 999999999888888876653
No 16
>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=20.92 E-value=1.6e+02 Score=19.10 Aligned_cols=38 Identities=13% Similarity=0.189 Sum_probs=31.7
Q ss_pred cchhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663 177 LDTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR 214 (220)
Q Consensus 177 ~~~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~ 214 (220)
....++..++..+++|.. -.|++.+.|-.=++.|+.+.
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 445777889999999998 99999999988887777654
Done!