Query 040614
Match_columns 475
No_of_seqs 58 out of 60
Neff 3.3
Searched_HMMs 29240
Date Mon Mar 25 16:13:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040614.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/040614hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1yd6_A UVRC; DNA binding prote 97.4 0.00034 1.2E-08 59.2 6.7 84 52-151 8-91 (99)
2 1yd0_A Uvrabc system protein C 97.3 0.00042 1.4E-08 58.4 6.5 83 52-152 8-90 (96)
3 2wsh_A Endonuclease II; GIY-YI 96.3 0.0032 1.1E-07 57.1 4.4 94 53-152 31-139 (143)
4 1mk0_A Intron-associated endon 76.7 3.8 0.00013 33.5 5.3 62 78-146 15-83 (97)
5 2kkr_A Ataxin-7; structural ge 32.9 15 0.00052 30.1 1.3 26 228-258 15-41 (74)
6 2kkt_A Ataxin-7-like protein 3 29.8 19 0.00064 30.2 1.4 26 228-258 12-38 (84)
7 3mx1_A ECO29KIR; type II restr 14.3 98 0.0033 30.1 2.9 95 52-152 54-177 (235)
8 1irz_A ARR10-B; helix-turn-hel 14.1 65 0.0022 25.4 1.4 12 83-94 45-56 (64)
9 1zg2_A Hypothetical UPF0213 pr 14.1 2.1E+02 0.0073 24.2 4.7 61 63-141 9-71 (107)
10 3raz_A Thioredoxin-related pro 10.9 3.6E+02 0.012 21.5 5.0 27 76-102 60-86 (151)
No 1
>1yd6_A UVRC; DNA binding protein; 2.00A {Bacillus caldotenax}
Probab=97.36 E-value=0.00034 Score=59.21 Aligned_cols=84 Identities=25% Similarity=0.369 Sum_probs=61.2
Q ss_pred eeecCCCCCCCceeeeeeecCCCcEEEEeecchhhHHHHHHhccCCCCCccCCCCCChhHHHHHhcceeeEEeecCCCch
Q 040614 52 KVHNLPNDTGPGLYELGIAVPGAGVIVVYVGQAESVRARLQAYGRTGAHLNSGCDSGRYFEDIFRRGYSIVYRSAPMKNK 131 (475)
Q Consensus 52 Rv~nLp~~~~pGlYELGVa~~~~~vvvvYlGqa~nvR~RLq~Ygr~GaHL~~~~~~~~Lf~eif~~g~sI~~R~a~t~~K 131 (475)
.+.+|| +.||||-+- ...| -++|+|+|.|+|+|+.+|=+.. |- .=...+.++...| .|-.|.+.
T Consensus 8 ~l~~lP--~~pGVY~~~---d~~g-~vlYVGKAknLr~Rv~syf~~~-~~-------~k~~~m~~~~~~i--~~~~t~sE 71 (99)
T 1yd6_A 8 KLAVLP--EQPGCYLMK---DKHG-TVIYVGKAKSLKERVRSYFTGT-HD-------GKTQRLVEEIADF--EYIVTSSN 71 (99)
T ss_dssp HHHTCC--SSCEEEEEE---CSSC-CEEEEEEESCHHHHHHGGGSSC-CC-------HHHHHHHHHCSEE--EEEECSSH
T ss_pred HHHhCC--CCCeEEEEE---cCCC-CEEEEecCcCHHHHHHHHcccC-CC-------hHHHHHHHheeEE--EEEEECCH
Confidence 467788 799999883 3344 3789999999999999997664 31 1123344555555 45578888
Q ss_pred HHHHHHHHHHhhcchhhhcc
Q 040614 132 EDAEKTERKILDKFDYAWNK 151 (475)
Q Consensus 132 ~~Ae~tE~~lL~~fdYAWN~ 151 (475)
.+|+-.|..|+..+.=-+|.
T Consensus 72 ~eAlllE~~lIk~~~P~yN~ 91 (99)
T 1yd6_A 72 AEALILEMNLIKKHDPKYNV 91 (99)
T ss_dssp HHHHHHHHHHHHHHCCHHHH
T ss_pred HHHHHHHHHHHHHhCCcchh
Confidence 89999999999987766654
No 2
>1yd0_A Uvrabc system protein C; DNA binding protein; 1.50A {Thermotoga maritima} PDB: 1ycz_A 1yd1_A 1yd4_A 1yd3_A 1yd2_A 1yd5_A
Probab=97.29 E-value=0.00042 Score=58.39 Aligned_cols=83 Identities=23% Similarity=0.366 Sum_probs=61.1
Q ss_pred eeecCCCCCCCceeeeeeecCCCcEEEEeecchhhHHHHHHhccCCCCCccCCCCCChhHHHHHhcceeeEEeecCCCch
Q 040614 52 KVHNLPNDTGPGLYELGIAVPGAGVIVVYVGQAESVRARLQAYGRTGAHLNSGCDSGRYFEDIFRRGYSIVYRSAPMKNK 131 (475)
Q Consensus 52 Rv~nLp~~~~pGlYELGVa~~~~~vvvvYlGqa~nvR~RLq~Ygr~GaHL~~~~~~~~Lf~eif~~g~sI~~R~a~t~~K 131 (475)
.+.+|| +.||||-+- . .|- ++|+|+|.|+|+|+.+|=+.. + .=...+.++...|- |-.|.+.
T Consensus 8 ~l~~lP--~~pGVY~~~---d-~g~-vlYVGKAknLr~Rv~syf~~~-~--------~k~~~~~~~~~~i~--~~~t~sE 69 (96)
T 1yd0_A 8 KILLAP--EEPGVYIFK---N-KGV-PIYIGKAKRLSNRLRSYLNPQ-T--------EKVFRIGEEADELE--TIVVMNE 69 (96)
T ss_dssp HHHHCC--SSCEEEEEE---E-TTE-EEEEEEESSHHHHHHGGGSCS-S--------HHHHHHHHHCSEEE--EEECSSH
T ss_pred HHHhCC--CCCeEEEEE---C-CCe-EEEEecCcCHHHHHHHHccCC-C--------HHHHHHHHhccEEE--EEEECCH
Confidence 366788 799999883 2 343 689999999999999997654 1 11233555556554 4568888
Q ss_pred HHHHHHHHHHhhcchhhhccC
Q 040614 132 EDAEKTERKILDKFDYAWNKG 152 (475)
Q Consensus 132 ~~Ae~tE~~lL~~fdYAWN~~ 152 (475)
.+|+-.|..|+..|.=-||..
T Consensus 70 ~eAlllE~~lIk~~~P~yN~~ 90 (96)
T 1yd0_A 70 REAFILEANLIKKYRPKYNVR 90 (96)
T ss_dssp HHHHHHHHHHHHHHCCTTCC-
T ss_pred HHHHHHHHHHHHHhCCCchhh
Confidence 899999999999887777653
No 3
>2wsh_A Endonuclease II; GIY-YIG, hydrolase; 1.90A {Enterobacteria phage T4}
Probab=96.29 E-value=0.0032 Score=57.08 Aligned_cols=94 Identities=15% Similarity=0.252 Sum_probs=59.6
Q ss_pred eecCCCCCC-CceeeeeeecCCCcEEEEeecchhhHHHHHHhccCCCCCccCCC----CCChhHHHHHh-cceeeEEe-e
Q 040614 53 VHNLPNDTG-PGLYELGIAVPGAGVIVVYVGQAESVRARLQAYGRTGAHLNSGC----DSGRYFEDIFR-RGYSIVYR-S 125 (475)
Q Consensus 53 v~nLp~~~~-pGlYELGVa~~~~~vvvvYlGqa~nvR~RLq~Ygr~GaHL~~~~----~~~~Lf~eif~-~g~sI~~R-~ 125 (475)
+..||...+ ||||-+-+ .| -++|+|+|.|+|.|+.+|-+.. +..... .+.-|.++|-+ ...-+++| +
T Consensus 31 l~~lp~~pG~~GVY~~~~----~g-~ViYVGKAknLkkRv~sYf~~~-~~~~~~~~~~Kt~~mv~~i~~g~~ve~i~~~~ 104 (143)
T 2wsh_A 31 IKQLSIPNKYNVIYAIAI----ND-ELVYIGKTKNLRKRINYYRTAI-NRKDKTSDSTKSALIHSALKEGSKVEFYARQC 104 (143)
T ss_dssp BCCCCCCCCCSEEEEEEE----TT-EEEEEEEESCHHHHHHHHHHHH-HTTCCSSCCHHHHHHHHHHHTTCCEEEEEEEC
T ss_pred cccCcCCCCCceEEEEEc----CC-eEEEEEecccHhHHHHHhcCCC-CcccccCCCHHHHHHHHHHhcCCcEEEEEecc
Confidence 566775444 66997762 33 4689999999999999996542 211110 11346666653 12333322 1
Q ss_pred c---CCCch-----HHHHHHHHHHhhcchhhhccC
Q 040614 126 A---PMKNK-----EDAEKTERKILDKFDYAWNKG 152 (475)
Q Consensus 126 a---~t~~K-----~~Ae~tE~~lL~~fdYAWN~~ 152 (475)
- .|.+. .+|.-.|..|+..|+=-||-.
T Consensus 105 ~~~~vt~~e~~~~e~eAllLE~nLIK~~~P~yNi~ 139 (143)
T 2wsh_A 105 FNLSMTNELGTMTIATIDLEAPLFIKLFNPPWNIQ 139 (143)
T ss_dssp CEEEEEETTEEEEEETHHHHHHHHHHHHCCTTCCC
T ss_pred cceeEecCCCccchhHHHHHHHHHHHHhCCccHhh
Confidence 1 34442 489999999999999999853
No 4
>1mk0_A Intron-associated endonuclease 1; alpha/beta fold, catalytic domain, DNA-binding surface, hydrolase; HET: CIT; 1.60A {Enterobacteria phage T4} SCOP: d.226.1.1 PDB: 1ln0_A
Probab=76.69 E-value=3.8 Score=33.48 Aligned_cols=62 Identities=19% Similarity=0.244 Sum_probs=40.7
Q ss_pred EEeecchhhHHHHHHhccCC---CCCccCCCCCChhHHHHHhcc----eeeEEeecCCCchHHHHHHHHHHhhcch
Q 040614 78 VVYVGQAESVRARLQAYGRT---GAHLNSGCDSGRYFEDIFRRG----YSIVYRSAPMKNKEDAEKTERKILDKFD 146 (475)
Q Consensus 78 vvYlGqa~nvR~RLq~Ygr~---GaHL~~~~~~~~Lf~eif~~g----~sI~~R~a~t~~K~~Ae~tE~~lL~~fd 146 (475)
.+|+|+|.|+..|+.+|-.. |.|-. ..|-+.+-.-| +.|+-.+.+ ++++....|...++.|+
T Consensus 15 k~YIGst~~l~~R~~~~~~~l~~g~~~n-----~~L~~a~~kyG~~F~~~iLe~~~~--~~~el~~~E~~~i~~l~ 83 (97)
T 1mk0_A 15 KVYVGSAKDFEKRWKRHFKDLEKGCHSS-----IKLQRSFNKHGNVFECSILEEIPY--EKDLIIERANFWIKELN 83 (97)
T ss_dssp CEEEEEESSHHHHHHHHHHHHHHTCCSC-----HHHHHHHHHHSSCEEEEEEEECCC--CHHHHHHHHHHHHHHTT
T ss_pred CEEEEecCCHHHHHHHHHHHHHcCCCCC-----HHHHHHHHhcCcceEEEEeeECCC--CHHHHHHHHHHHHHHhC
Confidence 38999999999999988543 66643 13333333334 334433322 25688899999998887
No 5
>2kkr_A Ataxin-7; structural genomics, structural proteomics in europe, zinc F spine, transcription, protein binding; NMR {Homo sapiens}
Probab=32.90 E-value=15 Score=30.13 Aligned_cols=26 Identities=27% Similarity=0.367 Sum_probs=20.2
Q ss_pred CCcccceeecCC-CCccCCCCCCCCccccccc
Q 040614 228 GHTGICGVSLGD-GSVCQMPPVEQRKRCIEHR 258 (475)
Q Consensus 228 ~~~~~CGv~l~d-G~~C~~~Pv~grKRC~~HK 258 (475)
+.+..|||+++| |-+|.+. -.|..|.
T Consensus 15 D~d~~CGV~~~~~~~~CtRS-----LTCK~HS 41 (74)
T 2kkr_A 15 DPDIHCGVIDLDTKKPCTRS-----LTCKTHS 41 (74)
T ss_dssp CTTTSCCSCCTTTSSCCCSC-----TTCTTSC
T ss_pred CCCccCCcCcCCCCCccccc-----ccCCCCC
Confidence 667889999975 8899875 3688873
No 6
>2kkt_A Ataxin-7-like protein 3; zinc finger, transcription, activator, alternative splicing, chromatin regulator, metal-binding, nucleus; NMR {Homo sapiens}
Probab=29.80 E-value=19 Score=30.19 Aligned_cols=26 Identities=31% Similarity=0.516 Sum_probs=20.6
Q ss_pred CCcccceeecCC-CCccCCCCCCCCccccccc
Q 040614 228 GHTGICGVSLGD-GSVCQMPPVEQRKRCIEHR 258 (475)
Q Consensus 228 ~~~~~CGv~l~d-G~~C~~~Pv~grKRC~~HK 258 (475)
+.+..|||+.+| |-+|.+. -+|+.|.
T Consensus 12 ~~~k~CGVi~~~t~k~CTRS-----LtCk~HS 38 (84)
T 2kkt_A 12 LLTTQCGVISEHTKKMCTRS-----LRCPQHT 38 (84)
T ss_dssp HTTTBCCCCBTTTTBSCCSB-----TTSSSCC
T ss_pred ccccccceEcCCCCCccccc-----ccccccc
Confidence 445789999975 8899875 5799994
No 7
>3mx1_A ECO29KIR; type II restriction endonuclease, GIY-YIG endonuclease, HYDR; 2.30A {Escherichia coli} PDB: 3mx4_A* 3nic_A*
Probab=14.27 E-value=98 Score=30.14 Aligned_cols=95 Identities=21% Similarity=0.292 Sum_probs=51.6
Q ss_pred eeecCCC---CCCCceeeeeeecCCC-----------c-EEEEeecchhhHHHHHHhccCCCCCccCCCCCChhHHHHHh
Q 040614 52 KVHNLPN---DTGPGLYELGIAVPGA-----------G-VIVVYVGQAESVRARLQAYGRTGAHLNSGCDSGRYFEDIFR 116 (475)
Q Consensus 52 Rv~nLp~---~~~pGlYELGVa~~~~-----------~-vvvvYlGqa~nvR~RLq~Ygr~GaHL~~~~~~~~Lf~eif~ 116 (475)
-+|.||+ ..+.|||-|=-+-.-. + -..+|+|+|+---.| .|++...... ..+.||.-|-.
T Consensus 54 pvh~L~~~~~F~GaGVYALYYtG~~~~Y~~l~~~Nr~~~~~PIYVGKAvP~g~R---kG~~~~~~~~--~g~~L~~RL~e 128 (235)
T 3mx1_A 54 PVHSLPPPERFQGAGVYALYYTGHYSLYDEYSRINRLAYNLPIYVGKAVPAGWR---QSRISDHETR--AGSELSNRIRE 128 (235)
T ss_dssp CCEESSCSSCCCCCEEEEEEECSCCGGGTTHHHHTSSSCCCCSEEEEECCTTTS---CSSCSSCSSC--CCSHHHHHHHH
T ss_pred CCccCCCCccccCceEEEEEecCCchHHHHHHHHhccCCCCCcEeecccCCccc---cCcccCCCCc--ccHHHHHHHHH
Confidence 4788875 3579999875543321 1 478899998532211 2221111110 11233322222
Q ss_pred ccee-----------eEEeecCCCch---HHHHHHHHHHhhcchhhhccC
Q 040614 117 RGYS-----------IVYRSAPMKNK---EDAEKTERKILDKFDYAWNKG 152 (475)
Q Consensus 117 ~g~s-----------I~~R~a~t~~K---~~Ae~tE~~lL~~fdYAWN~~ 152 (475)
-..| +-||+=..++. ..+.. |+-|+..|-=.||+.
T Consensus 129 H~~SI~~~~nLd~~DF~~R~LVv~~~~sdwI~l~-Es~LI~~~~P~WN~~ 177 (235)
T 3mx1_A 129 HGRNIAKTSNLDLCDFSCRFVIFEATGSDMISTV-QAALIKIYKPLWNTV 177 (235)
T ss_dssp HHHHHHTCSSCCGGGEEEEEEECCSGGGGGHHHH-HHHHHHHHCCHHHHT
T ss_pred HHHHHhcccCCChhHeEEEEEEEeccccchhhHH-HHHHHHHhCcchhcc
Confidence 1111 24566655555 44444 999999999999997
No 8
>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11
Probab=14.08 E-value=65 Score=25.45 Aligned_cols=12 Identities=33% Similarity=0.551 Sum_probs=11.1
Q ss_pred chhhHHHHHHhc
Q 040614 83 QAESVRARLQAY 94 (475)
Q Consensus 83 qa~nvR~RLq~Y 94 (475)
..+||+++||.|
T Consensus 45 T~~~VkSHLQKY 56 (64)
T 1irz_A 45 TRENVASHLQKF 56 (64)
T ss_dssp CHHHHHHHHHHH
T ss_pred CHHHHHHHHHHH
Confidence 689999999999
No 9
>1zg2_A Hypothetical UPF0213 protein BH0048; BHR2, structure, autostructure, northeast structural genomics consortium, PSI; NMR {Bacillus halodurans}
Probab=14.06 E-value=2.1e+02 Score=24.24 Aligned_cols=61 Identities=26% Similarity=0.384 Sum_probs=37.0
Q ss_pred ceeeeeeecCCCcEEEEeecchhhHHHHHHhc--cCCCCCccCCCCCChhHHHHHhcceeeEEeecCCCchHHHHHHHHH
Q 040614 63 GLYELGIAVPGAGVIVVYVGQAESVRARLQAY--GRTGAHLNSGCDSGRYFEDIFRRGYSIVYRSAPMKNKEDAEKTERK 140 (475)
Q Consensus 63 GlYELGVa~~~~~vvvvYlGqa~nvR~RLq~Y--gr~GaHL~~~~~~~~Lf~eif~~g~sI~~R~a~t~~K~~Ae~tE~~ 140 (475)
-||-|-- ..| ..|+|-|.|+..||.+. |. |+= +... .+-..+|| +-.-.++.+|.+-|.+
T Consensus 9 ~VYIL~~---~~g--~lY~G~T~dl~rRl~qH~~g~-ga~---~T~~--------~~p~~LVy-~e~f~~~~~Al~rE~~ 70 (107)
T 1zg2_A 9 YVYILEC---KDG--SWYTGYTTDVDRRIKKHASGK-GAK---YTRG--------RGPFRLVA-TWAFPSKEEAMRWEYE 70 (107)
T ss_dssp EEEEEEC---TTS--CEEEEEECCHHHHHHHHHHHT-TCC---SCCC--------CSSCEEEE-EEEESCHHHHHHHHHH
T ss_pred EEEEEEc---CCC--CEEEEEECCHHHHHHHHHccC-CCC---cccc--------CCCCEEEE-EEecCCHHHHHHHHHH
Confidence 4565544 233 58999999999999865 32 221 1110 11123444 2345689999999988
Q ss_pred H
Q 040614 141 I 141 (475)
Q Consensus 141 l 141 (475)
|
T Consensus 71 i 71 (107)
T 1zg2_A 71 V 71 (107)
T ss_dssp H
T ss_pred H
Confidence 7
No 10
>3raz_A Thioredoxin-related protein; structural genomics, PSI-2, protein structure initiative; 2.00A {Neisseria meningitidis serogroup B}
Probab=10.95 E-value=3.6e+02 Score=21.50 Aligned_cols=27 Identities=4% Similarity=0.033 Sum_probs=22.1
Q ss_pred EEEEeecchhhHHHHHHhccCCCCCcc
Q 040614 76 VIVVYVGQAESVRARLQAYGRTGAHLN 102 (475)
Q Consensus 76 vvvvYlGqa~nvR~RLq~Ygr~GaHL~ 102 (475)
++.|.+...+.+++-+++|+-+...+-
T Consensus 60 vv~v~~d~~~~~~~~~~~~~~~~~~~~ 86 (151)
T 3raz_A 60 MVGIALDTSDNIGNFLKQTPVSYPIWR 86 (151)
T ss_dssp EEEEESSCHHHHHHHHHHSCCSSCEEE
T ss_pred EEEEECCChHHHHHHHHHcCCCCceEe
Confidence 777778888999999999988877663
Done!