Query psy876
Match_columns 179
No_of_seqs 161 out of 647
Neff 5.1
Searched_HMMs 29240
Date Fri Aug 16 18:33:08 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy876.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/876hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4a15_A XPD helicase, ATP-depen 99.0 5.5E-10 1.9E-14 104.1 7.0 62 82-146 356-417 (620)
2 3crv_A XPD/RAD3 related DNA he 98.7 5E-09 1.7E-13 95.5 4.4 61 84-146 296-362 (551)
3 2vl7_A XPD; helicase, unknown 86.8 0.21 7.3E-06 45.1 1.5 26 90-116 303-332 (540)
4 4a15_A XPD helicase, ATP-depen 64.1 1.5 5.1E-05 40.6 0.2 43 2-44 83-134 (620)
5 2ll2_A GAP junction alpha-1 pr 19.1 36 0.0012 19.2 0.0 8 109-116 17-24 (26)
6 2ky6_A Mediator of RNA polymer 10.0 2.2E+02 0.0074 22.5 3.2 77 80-160 58-141 (166)
7 2qlc_A DNA repair protein RADC 10.0 2.3E+02 0.0078 20.8 3.2 28 89-116 53-85 (126)
8 3l4n_A Monothiol glutaredoxin- 9.7 2.3E+02 0.0078 20.4 3.1 32 90-122 1-32 (127)
9 1q2z_A ATP-dependent DNA helic 9.0 96 0.0033 22.6 0.8 15 111-125 1-15 (120)
10 1hq0_A CNF1, cytotoxic necroti 8.3 1.1E+02 0.0038 26.3 0.9 15 101-115 132-146 (295)
No 1
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase, nucleotide excision repair,; 2.20A {Thermoplasma acidophilum} PDB: 2vsf_A*
Probab=98.98 E-value=5.5e-10 Score=104.12 Aligned_cols=62 Identities=18% Similarity=0.263 Sum_probs=58.4
Q ss_pred CeEEEEEecChHHHHHHHHhhcceeEEeccccCChHhHHHhhCCCCCeEEEeCCccCCCCceEEE
Q psy876 82 KYTLHFWCLNSGLVFSDIRESARSVILTSGTLAPVDSFQSELGTQFPIKLEANHVIDKDQVFIGV 146 (179)
Q Consensus 82 ~~~L~~~cLdPs~~f~~I~~~arSVILtSGTLsPi~~f~~~Lg~~f~~~ls~~HVI~~enl~~~i 146 (179)
+..|+++||||+..|+ ++ .+++||||||||+|+++|.++||++ ...++.+|+++.+|..+++
T Consensus 356 ~~~l~~~~l~~~~~l~-~~-~~~~~il~SaTL~p~~~~~~~lGl~-~~~~~~~spf~~~~~~~~~ 417 (620)
T 4a15_A 356 GGYMQAACLDPSGILE-VL-KESKTIHMSGTLDPFDFYSDITGFE-IPFKKIGEIFPPENRYIAY 417 (620)
T ss_dssp GCEEEEEECCTHHHHG-GG-GGSEEEEEESSCCSHHHHHHHHCCC-CCEEECCCCSCGGGEEEEE
T ss_pred CcEEEEEECCHHHHHH-HH-hCCeEEEEccCCCcHHHHHHHhCCC-ceeeecCCCCCHHHeEEEE
Confidence 4789999999999999 99 9999999999999999999999998 7889999999999988776
No 2
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1*
Probab=98.74 E-value=5e-09 Score=95.50 Aligned_cols=61 Identities=18% Similarity=0.193 Sum_probs=54.1
Q ss_pred EEEEEecChHHHHHHHHhhc-ceeEEeccccCChHhHHHhhCCCCCe-----EEEeCCccCCCCceEEE
Q psy876 84 TLHFWCLNSGLVFSDIRESA-RSVILTSGTLAPVDSFQSELGTQFPI-----KLEANHVIDKDQVFIGV 146 (179)
Q Consensus 84 ~L~~~cLdPs~~f~~I~~~a-rSVILtSGTLsPi~~f~~~Lg~~f~~-----~ls~~HVI~~enl~~~i 146 (179)
.|+++||||+..|+ +++++ +++|||||||+|+++|.++||++++. .++.+|++ ++|..+++
T Consensus 296 ~l~~~pl~~~~~l~-~~~~~~~svIltSaTL~~~~~~~~~lGl~~~~~~~~~~~~~~spf-~~~~~l~v 362 (551)
T 3crv_A 296 RLVIKNPEISYYLN-LLNDNELSIILMSGTLPPREYMEKVWGIKRNMLYLDVEREIQKRV-SGSYECYI 362 (551)
T ss_dssp EEEEECCCTHHHHG-GGGCTTCEEEEEESSCCCHHHHHHTSCCCSCEEEEEHHHHTTSCC-SCEEEEEE
T ss_pred EEEEEECCHHHHHH-HHhccCceEEEEeeCCCcHHHHHHHhCCCCccccccceeecCCcC-CCceEEEE
Confidence 89999999999999 88999 99999999999999999999997543 45678888 88887766
No 3
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Probab=86.84 E-value=0.21 Score=45.13 Aligned_cols=26 Identities=35% Similarity=0.245 Sum_probs=19.4
Q ss_pred cChHHHHHHHHhhccee----EEeccccCCh
Q psy876 90 LNSGLVFSDIRESARSV----ILTSGTLAPV 116 (179)
Q Consensus 90 LdPs~~f~~I~~~arSV----ILtSGTLsPi 116 (179)
++|+..+..+. +++++ |||||||+|+
T Consensus 303 ~~P~~~~~~l~-~~~~~~~~~IltSATL~p~ 332 (540)
T 2vl7_A 303 KVPSDVNQLIE-DALNVKTFKVLMSGTLPES 332 (540)
T ss_dssp EECSCHHHHHH-HHTCCSSCEEEEESSCCTT
T ss_pred EehHHHHHHHH-HhcCccCCeEEEcccCCCC
Confidence 78877665444 44675 9999999994
No 4
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase, nucleotide excision repair,; 2.20A {Thermoplasma acidophilum} PDB: 2vsf_A*
Probab=64.06 E-value=1.5 Score=40.57 Aligned_cols=43 Identities=16% Similarity=0.273 Sum_probs=31.9
Q ss_pred ceeccCCcccc-Chhhhcc-ccCHHH---HHHHhhh----ccCccceEeccC
Q psy876 2 TILSSRKHTCI-NDEVLKA-KENIND---LCQELKE----TEGESNRWYRKD 44 (179)
Q Consensus 2 til~sr~~tci-~~~~~~~-~~~~~~---~c~~~~~----~~~~~c~~~~~~ 44 (179)
.+|.||++.|+ |+.+... ....++ .|.++.+ .....|.||.+.
T Consensus 83 ~~l~gr~~lC~~~~~~~~~~~~~~~~~~~~C~~l~~~~~~~~~~~C~~~~~~ 134 (620)
T 4a15_A 83 IPMQGRVNMCILYRMVDDLHEINAESLAKFCNMKKREVMAGNEAACPYFNFK 134 (620)
T ss_dssp EECCCHHHHCSSHHHHCCCSSCCHHHHHHHHHHHHHHHHTTCTTSSTTCSGG
T ss_pred EEEECCCcccccChhhhhcccchhhhHHHHHHHHHhccccCCCCCCCccccc
Confidence 57899999999 9998652 234565 8988765 235789999864
No 5
>2ll2_A GAP junction alpha-1 protein; membrane protein; NMR {Homo sapiens}
Probab=19.08 E-value=36 Score=19.19 Aligned_cols=8 Identities=63% Similarity=1.028 Sum_probs=5.7
Q ss_pred eccccCCh
Q psy876 109 TSGTLAPV 116 (179)
Q Consensus 109 tSGTLsPi 116 (179)
+.|||+|-
T Consensus 17 t~g~LsP~ 24 (26)
T 2ll2_A 17 TSGALSPA 24 (26)
Confidence 46888874
No 6
>2ky6_A Mediator of RNA polymerase II transcription subun; ARC, VP16 binding domain, acid, transcription REGU; NMR {Homo sapiens} PDB: 2l23_A 2l6u_A 2xnf_A
Probab=10.01 E-value=2.2e+02 Score=22.53 Aligned_cols=77 Identities=14% Similarity=0.258 Sum_probs=43.1
Q ss_pred CCCeEEEEEecChHHHHHH---HHhhcceeEEeccc--cCChHhHHHhhCCCCCeEEEeCCccCCC--CceEEEeccccc
Q psy876 80 SIKYTLHFWCLNSGLVFSD---IRESARSVILTSGT--LAPVDSFQSELGTQFPIKLEANHVIDKD--QVFIGVLGQGQK 152 (179)
Q Consensus 80 ~~~~~L~~~cLdPs~~f~~---I~~~arSVILtSGT--LsPi~~f~~~Lg~~f~~~ls~~HVI~~e--nl~~~i~~~~~~ 152 (179)
+....++++ |...+.. .++++++|+|-+.. .+-++.+.+.+...|.=-.-.++. +.. .++.++-++..+
T Consensus 58 P~kL~mqLi---Pk~lL~~ig~~fknSk~VvF~~t~~d~E~L~sL~~~Mt~gfaGcvhF~~~-~~ceiKvLiLlYs~~k~ 133 (166)
T 2ky6_A 58 PQKLIMQLI---PQQLLTTLGPLFRNSRMVQFHFTNKDLESLKGLYRIMGNGFAGCVHFPHT-APCEVRVLMLLYSSKKK 133 (166)
T ss_dssp CSEEEEEEE---EHHHHHHHGGGGSSEEEEEEEECSSCHHHHHHHHHHHHHHEEEEEECCTT-CCCSCCEEEEEECTTTC
T ss_pred CHhhhhhhC---cHHHHHHHHHHhhcCeEEEEecCCCchHHHHHHHHHhhccceEEEECCCC-CCcceEEEEEEEcCCcc
Confidence 444444444 4444444 46789999999765 333667777665434311111221 223 455555577777
Q ss_pred eeeeeecc
Q psy876 153 VFIGVLGQ 160 (179)
Q Consensus 153 ~~~~vl~~ 160 (179)
.|.|.|..
T Consensus 134 aflGfIPn 141 (166)
T 2ky6_A 134 IFMGLIPY 141 (166)
T ss_dssp SEEEEEES
T ss_pred eeeeeccC
Confidence 77777765
No 7
>2qlc_A DNA repair protein RADC homolog; MCSG, structural genomics, PSI-2, structure initiative; HET: DNA; 2.30A {Chlorobium tepidum tls}
Probab=9.97 E-value=2.3e+02 Score=20.80 Aligned_cols=28 Identities=36% Similarity=0.535 Sum_probs=23.2
Q ss_pred ecChHHHHHHHH-hhcceeEEe----ccccCCh
Q psy876 89 CLNSGLVFSDIR-ESARSVILT----SGTLAPV 116 (179)
Q Consensus 89 cLdPs~~f~~I~-~~arSVILt----SGTLsPi 116 (179)
.++|...|+..+ ..|.+|||+ ||-+.|-
T Consensus 53 ~v~pRei~~~Al~~~A~~vIl~HNHPSG~~~PS 85 (126)
T 2qlc_A 53 LIHPREIFKAAIRESAHSIILVHNHPSGDVQPS 85 (126)
T ss_dssp GCCHHHHHHHHHHTTCSEEEEEEECSSSCCSCC
T ss_pred eecHHHHHHHHHHcCCcEEEEEecCCCCCCCCC
Confidence 567888888876 589999994 9999994
No 8
>3l4n_A Monothiol glutaredoxin-6; C-terminal domain of GRX6, oxidoreductase; HET: GSH; 1.50A {Saccharomyces cerevisiae}
Probab=9.75 E-value=2.3e+02 Score=20.38 Aligned_cols=32 Identities=19% Similarity=0.133 Sum_probs=23.3
Q ss_pred cChHHHHHHHHhhcceeEEeccccCChHhHHHh
Q psy876 90 LNSGLVFSDIRESARSVILTSGTLAPVDSFQSE 122 (179)
Q Consensus 90 LdPs~~f~~I~~~arSVILtSGTLsPi~~f~~~ 122 (179)
+||+..|+++++..+ |++.|-+-.|.-.-...
T Consensus 1 f~p~~~~~~ii~~~~-Vvvysk~~Cp~C~~ak~ 32 (127)
T 3l4n_A 1 FNVQKEYSLILDLSP-IIIFSKSTCSYSKGMKE 32 (127)
T ss_dssp CCHHHHHHHHHTSCS-EEEEECTTCHHHHHHHH
T ss_pred CCHHHHHHHHHccCC-EEEEEcCCCccHHHHHH
Confidence 689999999887665 66666778886544443
No 9
>1q2z_A ATP-dependent DNA helicase II, 80 kDa subunit; KU, DNA repair, protein structure, spectroscopy, DNA-PK, KU86, KU80, protein binding; NMR {Homo sapiens} SCOP: a.118.19.1
Probab=9.01 E-value=96 Score=22.62 Aligned_cols=15 Identities=20% Similarity=0.554 Sum_probs=12.8
Q ss_pred cccCChHhHHHhhCC
Q psy876 111 GTLAPVDSFQSELGT 125 (179)
Q Consensus 111 GTLsPi~~f~~~Lg~ 125 (179)
|+..|+.+|..+|.-
T Consensus 1 G~~nPv~DFk~ll~~ 15 (120)
T 1q2z_A 1 GPVNPAENFRVLVKQ 15 (120)
T ss_dssp CCCCHHHHHHHHTSS
T ss_pred CCCChHHHHHHHHHc
Confidence 789999999998843
No 10
>1hq0_A CNF1, cytotoxic necrotizing factor 1; beta sandwich, RHO deamidase, RHO transglutaminase, toxin; 1.83A {Escherichia coli} SCOP: d.194.1.1 PDB: 1hzg_A
Probab=8.30 E-value=1.1e+02 Score=26.33 Aligned_cols=15 Identities=40% Similarity=0.689 Sum_probs=13.0
Q ss_pred hhcceeEEeccccCC
Q psy876 101 ESARSVILTSGTLAP 115 (179)
Q Consensus 101 ~~arSVILtSGTLsP 115 (179)
+..+.||++||+|+=
T Consensus 132 ~~g~pviitsG~LSG 146 (295)
T 1hq0_A 132 QEGKPVIITSGNLSG 146 (295)
T ss_dssp BTTBCEEEECCCBSS
T ss_pred CCCCeEEEeCCcccC
Confidence 578899999999984
Done!