Query 009712
Match_columns 528
No_of_seqs 161 out of 890
Neff 3.9
Searched_HMMs 29240
Date Mon Mar 25 11:20:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009712.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/009712hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3saf_A Exosome component 10; e 99.8 1.7E-20 5.7E-25 196.5 8.8 142 1-145 273-414 (428)
2 2hbj_A Exosome complex exonucl 99.8 3.8E-19 1.3E-23 184.4 6.5 116 17-134 258-387 (410)
3 1yt3_A Ribonuclease D, RNAse D 99.7 2.5E-17 8.7E-22 167.6 13.3 118 17-138 174-292 (375)
4 3cym_A Uncharacterized protein 99.6 9.8E-17 3.4E-21 167.9 6.8 121 17-139 191-333 (440)
5 1wud_A ATP-dependent DNA helic 99.6 6.4E-16 2.2E-20 129.9 6.6 77 55-131 8-84 (89)
6 2rhf_A DNA helicase RECQ; HRDC 99.6 5.5E-15 1.9E-19 120.5 8.2 72 59-130 4-75 (77)
7 2kv2_A Bloom syndrome protein; 99.5 8.9E-14 3E-18 115.8 8.8 74 57-130 4-77 (85)
8 2rrd_A BLM HRDC domain, HRDC d 99.5 9.6E-14 3.3E-18 119.8 8.9 74 57-130 19-92 (101)
9 2e1f_A Werner syndrome ATP-dep 99.4 5.1E-13 1.8E-17 115.7 8.3 72 58-130 13-84 (103)
10 2dgz_A Werner syndrome protein 99.4 5.1E-13 1.8E-17 117.7 8.1 73 58-131 20-92 (113)
11 1d8b_A SGS1 RECQ helicase; fiv 95.4 0.041 1.4E-06 46.3 7.2 56 62-117 8-63 (81)
12 3cym_A Uncharacterized protein 75.3 6.6 0.00023 41.1 8.0 72 56-127 359-433 (440)
13 1yt3_A Ribonuclease D, RNAse D 44.1 11 0.00036 38.2 2.5 69 57-127 301-371 (375)
14 1go3_F DNA-directed RNA polyme 34.9 32 0.0011 29.6 3.8 42 85-128 64-105 (107)
15 3ayh_A DNA-directed RNA polyme 29.8 79 0.0027 28.1 5.6 48 82-129 86-134 (136)
16 3hou_D DNA-directed RNA polyme 26.0 1.5E+02 0.0053 28.9 7.2 62 56-130 156-218 (221)
17 3s2w_A Transcriptional regulat 25.5 1.9E+02 0.0065 24.4 7.1 58 62-122 31-88 (159)
18 2c35_A Human RPB4, DNA-directe 21.2 83 0.0028 28.6 4.1 48 83-130 100-148 (152)
19 3g3z_A NMB1585, transcriptiona 20.5 2.4E+02 0.0082 23.2 6.6 17 53-69 27-43 (145)
No 1
>3saf_A Exosome component 10; exoribonuclease, RNA exosome, hydrolase; 2.50A {Homo sapiens} PDB: 3sag_A 3sah_A 2cpr_A
Probab=99.81 E-value=1.7e-20 Score=196.45 Aligned_cols=142 Identities=28% Similarity=0.475 Sum_probs=122.9
Q ss_pred ChhhhhcCCCCCCCCCCcHHHHHHHHHHHHHHHHhhccCChhHHHHhhhhccCCCCHHHHHHHHHHHHHHHHHHHHhCCC
Q 009712 1 MKIKLSSMPKESENSDTPLTEVYKRSYDVCRQLYEKELLSENSYLHIYGLQGAGLNAQQLAVVAGLCEWRDVIARADDES 80 (528)
Q Consensus 1 MRneLi~~s~~s~~~~nlL~wVLerS~eLcLq~YEKe~~deesYlrIkG~~~~~Ls~rQLAVLRaL~eWRD~iAReeDeP 80 (528)
|+.+|.+.+. ...+++.||+++|+.+|+++|+++.+++..|+++++...+.++++|+++|++|++||+++||++|+|
T Consensus 273 L~~~L~~~g~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~l~~~L~~wR~~~Ar~~d~p 349 (428)
T 3saf_A 273 MRLEMWERGN---GQPVQLQVVWQRSRDICLKKFIKPIFTDESYLELYRKQKKHLNTQQLTAFQLLFAWRDKTARREDES 349 (428)
T ss_dssp HHHHHHHHTT---SCSHHHHHHHHHHHHHTTCCCCCCCCCTTGGGHHHHTTCCCCCHHHHHHHHHHHHHHHHHHHHHTCC
T ss_pred HHHHHHhcCC---ccccHHHHHHHHHHHHHHHhhcCCCCCcccHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHHcCCC
Confidence 3566666542 2345899999999999998898877888889998776556899999999999999999999999999
Q ss_pred CCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHHhcccchHHHHHHhhh
Q 009712 81 TGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSMQNAANFEVIAQKLKE 145 (528)
Q Consensus 81 p~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~elp~~~ps~~e~lk~ 145 (528)
++|||+|++|++||+.+|+|..+|.+|.|+.++.+++||++|+++|++|.+.+-..++....+|+
T Consensus 350 ~~~V~~d~~L~~iA~~~P~~~~~L~~i~g~~~~~~r~~g~~~l~~I~~a~~~p~~~~~~~~~~~~ 414 (428)
T 3saf_A 350 YGYVLPNHMMLKIAEELPKEPQGIIACCNPVPPLVRQQINEMHLLIQQAREMPLLKSEVAAGVKK 414 (428)
T ss_dssp HHHHCCHHHHHHHHHHCCSSHHHHHTTCSSCCHHHHHTHHHHHHHHHHHHTSCCCHHHHCC----
T ss_pred cCEEECHHHHHHHHHHCCCCHHHHHhccCCCHHHHHHHHHHHHHHHHHHHhCCCcCcchhhhhcc
Confidence 99999999999999999999999999999999999999999999999999998777776665554
No 2
>2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance, RNA processing, hydrolase, gene regulation; 2.10A {Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB: 2hbk_A 2hbl_A* 2hbm_A*
Probab=99.76 E-value=3.8e-19 Score=184.42 Aligned_cols=116 Identities=23% Similarity=0.392 Sum_probs=103.7
Q ss_pred CcHHHHHHHHHHHHHHHHhh--------------ccCChhHHHHhhhhccCCCCHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 009712 17 TPLTEVYKRSYDVCRQLYEK--------------ELLSENSYLHIYGLQGAGLNAQQLAVVAGLCEWRDVIARADDESTG 82 (528)
Q Consensus 17 nlL~wVLerS~eLcLq~YEK--------------e~~deesYlrIkG~~~~~Ls~rQLAVLRaL~eWRD~iAReeDePp~ 82 (528)
+++.||+++|+.+|.+.|+. ...+...|+++++. +.+++++++||++|++||+++||++|+|++
T Consensus 258 g~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~l~~~L~~wR~~~Ar~~d~p~~ 335 (410)
T 2hbj_A 258 NKLAGVLYESRNVAKRRFEYSKYRPLTPSSEVYSPIEKESPWKILMYQ--YNIPPEREVLVRELYQWRDLIARRDDESPR 335 (410)
T ss_dssp TCHHHHHHHHHHHHHCEECCGGGCCSSCCSSEECCCCSSSSSSSCSSC--SCCCSTTHHHHHHHHHHHHHHHHHHTCCHH
T ss_pred CchHhHHHHHHHHHHHHhhhccccccccccccccCCchhHHHHHHhhh--cCCCHHHHHHHHHHHHHHHHHHHHcCCCCc
Confidence 47999999999999987642 12235679999875 578999999999999999999999999999
Q ss_pred cccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHHhccc
Q 009712 83 YVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSMQNAA 134 (528)
Q Consensus 83 yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~elp~ 134 (528)
|||+|++|++||+.+|+|.++|.+|.|+....+++||++|+++|+++++.+.
T Consensus 336 ~V~~D~~L~~iA~~~P~~~~~L~~i~g~~~~~~~~~g~~~l~~I~~~~~~~~ 387 (410)
T 2hbj_A 336 FVMPNQLLAALVAYTPTDVIGVVSLTNGVTEHVRQNAKLLANLIRDALRNIK 387 (410)
T ss_dssp HHCCHHHHHHHHHHCCCSHHHHHTCTTCCCHHHHHTHHHHHHHHHHHHHHHH
T ss_pred EEECHHHHHHHHHhCCCCHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHhccc
Confidence 9999999999999999999999999999999999999999999999976554
No 3
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase, tRNA processing, hydrolase,translation; 1.60A {Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5
Probab=99.72 E-value=2.5e-17 Score=167.58 Aligned_cols=118 Identities=19% Similarity=0.221 Sum_probs=106.1
Q ss_pred CcHHHHHHHHHHHHHHHHhhccCChhHHHHhhhhccCCCCHHHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHh
Q 009712 17 TPLTEVYKRSYDVCRQLYEKELLSENSYLHIYGLQGAGLNAQQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQ 96 (528)
Q Consensus 17 nlL~wVLerS~eLcLq~YEKe~~deesYlrIkG~~~~~Ls~rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq 96 (528)
+++.||+++|+..+...+.. ..++..|+++++. +.+++++++++++|++||+++||++|+|++|||+|++|++||+.
T Consensus 174 g~~~l~~~e~E~pl~~~~~~-~~~~~~~~~~~~~--~~l~~~~~~~~~~L~~wR~~~A~~~d~p~~~V~~d~~L~~iA~~ 250 (375)
T 1yt3_A 174 GWLPAALDECRLMQMRRQEV-VAPEDAWRDITNA--WQLRTRQLACLQLLADWRLRKARERDLAVNFVVREEHLWSVARY 250 (375)
T ss_dssp TCHHHHHHHHHHHHHHHHCC-CCGGGGGGGSTTG--GGSCHHHHHHHHHHHHHHHHHHHHHTCCGGGTSCHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHhhcccC-CCchHHHHhccCc--ccCCHHHHHHHHHHHHHHHHHHHHhCCCcceEECHHHHHHHHHH
Confidence 47889999999999987653 3456789999875 46899999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHHhccc-chHH
Q 009712 97 LPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSMQNAA-NFEV 138 (528)
Q Consensus 97 ~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~elp~-~~ps 138 (528)
+|+|.++|.++ |+....+++||+.|+++|+++.+.++ .+|.
T Consensus 251 ~P~~~~~l~~i-g~~~~~~~~~g~~~l~~i~~~~~~~~~~~p~ 292 (375)
T 1yt3_A 251 MPGSLGELDSL-GLSGSEIRFHGKTLLALVEKAQTLPEDALPQ 292 (375)
T ss_dssp CCCSHHHHHHT-TCCHHHHHHHHHHHHHHHHHHHHSCGGGSCC
T ss_pred CCCCHHHHHhc-CCChHHHHHHHHHHHHHHHHHHhCCHhhCCC
Confidence 99999999999 99999999999999999999998765 4553
No 4
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown function; 2.10A {Bifidobacterium adolescentis atcc 1570ORGANISM_TAXID}
Probab=99.64 E-value=9.8e-17 Score=167.92 Aligned_cols=121 Identities=18% Similarity=0.230 Sum_probs=103.8
Q ss_pred CcHHHHHHHHHHHHHHHHhhccCChhHHHHhhhhccCCC--CHHHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHH
Q 009712 17 TPLTEVYKRSYDVCRQLYEKELLSENSYLHIYGLQGAGL--NAQQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIA 94 (528)
Q Consensus 17 nlL~wVLerS~eLcLq~YEKe~~deesYlrIkG~~~~~L--s~rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELA 94 (528)
.++.|+.++|..+|...+.++......|+++++.. .+ +++|++||++|++||+.+||++|+|++|||+|++|++||
T Consensus 191 g~~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~l~~~~~L~~wR~~~Ar~~d~p~~~V~~d~~L~~iA 268 (440)
T 3cym_A 191 GKMEWAQEEFDYALKEGLGPRKEHLIPWMHVSHIT--EVMRDRQALAIVRALWTRRDELAREYDIAPTLLLSDSSIIEVA 268 (440)
T ss_dssp TCHHHHHHHHHHHHHHHSSSCCCCSSGGGCCTTGG--GGTTCHHHHHHHHHHHHHHHHHHHHTTSCHHHHSCHHHHHHHH
T ss_pred CcHHHHHHHHHHHhccccccCCCchHHHHHhcccc--ccCCCHHHHHHHHHHHHHHHHHHHHhCCCccEEECHHHHHHHH
Confidence 37899999999999977654445667898887643 45 999999999999999999999999999999999999999
Q ss_pred HhCCCCHHHHHhhhCCChhH------------------HHh-hHHHHHHHHHHHHhccc-chHHH
Q 009712 95 KQLPTTAAKLRRLLKSKHSY------------------IER-YMGPVLSIIKNSMQNAA-NFEVI 139 (528)
Q Consensus 95 kq~PtS~~eLlrI~g~~~~~------------------VRr-hgdeILeIIr~A~elp~-~~ps~ 139 (528)
+.+|+|.++|.++.++.... +++ |++.|+++|+++.+.+. .||..
T Consensus 269 ~~~P~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~i~~~~~~~~~~~P~~ 333 (440)
T 3cym_A 269 KRKPHNAAQFRSIRSINERVRIHTDSEQDKMFERYAPIQRKIKPSMWKNIIQDALALPPSEWPDV 333 (440)
T ss_dssp HHCCCSHHHHHTCSGGGSCCCCCCSSTHHHHHHTTHHHHTTSCHHHHHHHHHHHHTSCGGGSCC-
T ss_pred HHCCCCHHHHHhCCCCCchheecccchhhhhhcccchhhhhhhHHHHHHHHHHHHhCCHhhCCCC
Confidence 99999999999998765444 488 99999999999999875 57754
No 5
>1wud_A ATP-dependent DNA helicase RECQ; DNA-binding domain, HRDC, hydrolase; 2.20A {Escherichia coli} SCOP: a.60.8.1
Probab=99.60 E-value=6.4e-16 Score=129.89 Aligned_cols=77 Identities=25% Similarity=0.336 Sum_probs=72.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHHh
Q 009712 55 LNAQQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSMQ 131 (528)
Q Consensus 55 Ls~rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~e 131 (528)
-+++++++|++|+.||+.+|+++|+||++||+|.+|++||+.+|+|.++|.+|.|+....+++||+.||++|+.+.+
T Consensus 8 ~~~~~~~l~~~L~~wR~~~A~~~~vpp~~If~D~tL~eiA~~~P~t~~eL~~i~Gvg~~k~~~yG~~~l~~I~~~~~ 84 (89)
T 1wud_A 8 GGNYDRKLFAKLRKLRKSIADESNVPPYVVFNDATLIEMAEQMPITASEMLSVNGVGMRKLERFGKPFMALIRAHVD 84 (89)
T ss_dssp --CCCHHHHHHHHHHHHHHHHHHTSCHHHHCCHHHHHHHHHHCCCSHHHHHTSTTCCHHHHHHHHHHHHHHHHHHHT
T ss_pred CCHHHHHHHHHHHHHHHHHHHHcCCCcceeeCHHHHHHHHHhCCCCHHHHhhCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 34578999999999999999999999999999999999999999999999999999999999999999999999864
No 6
>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans}
Probab=99.56 E-value=5.5e-15 Score=120.54 Aligned_cols=72 Identities=25% Similarity=0.266 Sum_probs=69.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHH
Q 009712 59 QLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSM 130 (528)
Q Consensus 59 QLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~ 130 (528)
..++|++|+.||+++|+++|+||++||+|.+|++||+.+|+|.++|..|.|+....+++||+.|+++|++++
T Consensus 4 d~~l~~~L~~wR~~~A~~~~vpp~~I~~d~~L~~iA~~~P~t~~eL~~i~Gvg~~k~~~yG~~~l~~i~~~~ 75 (77)
T 2rhf_A 4 NADLSEALRELRRELMKETGYSAFVVFTNATLEALAARQPRTLAELAEVPGLGEKRIEAYGERILDAINTVL 75 (77)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCCHHHHCCHHHHHHHHHHCCCSHHHHTTSTTTCHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHcCCCcceeeCHHHHHHHHHhCCCCHHHHhhCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 468999999999999999999999999999999999999999999999999999999999999999999875
No 7
>2kv2_A Bloom syndrome protein; HRDC domain, disease mutation, DNA replicati binding, nucleotide-binding, nucleus, gene regulation; NMR {Homo sapiens}
Probab=99.48 E-value=8.9e-14 Score=115.80 Aligned_cols=74 Identities=15% Similarity=0.157 Sum_probs=70.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHH
Q 009712 57 AQQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSM 130 (528)
Q Consensus 57 ~rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~ 130 (528)
+....+|++|..||+.+|+++|+|+++||+|.+|++||+.+|+|.++|..|.|+....+++||+.||++|+.+.
T Consensus 4 ~~~~~l~~~L~~wR~~~A~~~~vp~~~If~d~tL~~iA~~~P~t~~eL~~i~Gvg~~k~~~yG~~~l~~i~~~~ 77 (85)
T 2kv2_A 4 EMVKKCLGELTEVCKSLGKVFGVHYFNIFNTVTLKKLAESLSSDPEVLLQIDGVTEDKLEKYGAEVISVLQKYS 77 (85)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTSCHHHHCCHHHHHHHHHHCCSCHHHHHTSSSCCHHHHHHTHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHcCCCcceeECHHHHHHHHHhCCCCHHHHhhCCCCCHHHHHHHHHHHHHHHHHhc
Confidence 34567999999999999999999999999999999999999999999999999999999999999999999874
No 8
>2rrd_A BLM HRDC domain, HRDC domain from bloom syndrome protein; DNA helicase, RECQ family, HRDC DOMA binding protein; NMR {Homo sapiens}
Probab=99.47 E-value=9.6e-14 Score=119.84 Aligned_cols=74 Identities=15% Similarity=0.157 Sum_probs=70.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHH
Q 009712 57 AQQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSM 130 (528)
Q Consensus 57 ~rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~ 130 (528)
..+.++|++|..||+.+|+++|+|+++||+|.+|++||+.+|+|.++|..|.|+....+++||+.||++|+++.
T Consensus 19 e~~~~l~~~L~~wR~~~A~~~~vP~~~If~D~tL~eiA~~~P~t~~eL~~I~Gvg~~k~~~yG~~~L~~I~~~~ 92 (101)
T 2rrd_A 19 EMVKKCLGELTEVCKSLGKVFGVHYFNIFNTVTLKKLAESLSSDPEVLLQIDGVTEDKLEKYGAEVISVLQKYS 92 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTCCHHHHCCHHHHHHHHHHCCCCHHHHHTSTTCCHHHHHHTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCeeECHHHHHHHHHhCCCCHHHHhhCCCCCHHHHHHHHHHHHHHHHHhC
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999874
No 9
>2e1f_A Werner syndrome ATP-dependent helicase; HRDC domain, hydrolase; 2.00A {Homo sapiens} SCOP: a.60.8.1 PDB: 2e1e_A
Probab=99.40 E-value=5.1e-13 Score=115.75 Aligned_cols=72 Identities=25% Similarity=0.338 Sum_probs=68.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHH
Q 009712 58 QQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSM 130 (528)
Q Consensus 58 rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~ 130 (528)
.+.++|++|..||..+|+++|+|+++||+|.+|++||+.+|+|.++|.+|.|+....+++| +.||++|+.+.
T Consensus 13 ~d~~l~~~L~~wR~~~A~~~~vP~y~If~D~tL~emA~~~P~t~~eL~~I~Gvg~~K~~~y-~~~L~~I~~~~ 84 (103)
T 2e1f_A 13 TQIVLYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAML-APLLEVIKHFC 84 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTSCHHHHCCHHHHHHHHHHCCCSHHHHTTSTTCCHHHHHHT-HHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCCCeeECHHHHHHHHHhCCCCHHHHhcCCCCCHHHHHHH-HHHHHHHHHHH
Confidence 4568999999999999999999999999999999999999999999999999999999999 99999998874
No 10
>2dgz_A Werner syndrome protein variant; HRDC domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.60.8.1
Probab=99.39 E-value=5.1e-13 Score=117.65 Aligned_cols=73 Identities=25% Similarity=0.324 Sum_probs=69.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHHHHh
Q 009712 58 QQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKNSMQ 131 (528)
Q Consensus 58 rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~A~e 131 (528)
.+.++|++|..||..+|+++|+|+++||+|.+|++||+++|+|.++|.+|.|+....+++| +.||++|+.+.+
T Consensus 20 ~d~~l~~~L~~wR~~~A~~~~vP~y~If~D~tL~emA~~~P~t~~eL~~I~Gvg~~K~~~y-~~~L~~I~~~~~ 92 (113)
T 2dgz_A 20 TQIVLYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAML-APLWEVIKHFCQ 92 (113)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTCCHHHHCCHHHHHHHHHHCCCSHHHHHHSSSCCTTGGGGG-HHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCeeECHHHHHHHHHhCCCCHHHHHhCCCCCHHHHHHH-HHHHHHHHHHHH
Confidence 4578999999999999999999999999999999999999999999999999999999999 999999988753
No 11
>1d8b_A SGS1 RECQ helicase; five helices, three-helical bundle flanked by two helices, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.60.8.1
Probab=95.42 E-value=0.041 Score=46.33 Aligned_cols=56 Identities=20% Similarity=0.240 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHh
Q 009712 62 VVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIER 117 (528)
Q Consensus 62 VLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRr 117 (528)
.+..|.+-|-.++.+...|...+|+|.+|.+||..+|+|-+++..+.|..+..+++
T Consensus 8 ay~~Lr~~~i~~s~~~~p~~s~~m~d~~Lrk~A~~LP~~e~eF~~L~g~~~~~~~~ 63 (81)
T 1d8b_A 8 TYERLRELSLNLGNRMVPPVGNFMPDSILKKMAAILPMNDSAFATLGTVEDKYRRR 63 (81)
T ss_dssp HHHHHHHHHHHHHHSSSSCCSCSSCHHHHHHHHHHCCCSHHHHGGGSCCCHHHHHH
T ss_pred HHHHHHHHHHHHhhccCCchhhhccHHHHHHHHHHCCCCHHHHHHccCCCHHHHHH
Confidence 57788888999999999999999999999999999999999999999988777754
No 12
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown function; 2.10A {Bifidobacterium adolescentis atcc 1570ORGANISM_TAXID}
Probab=75.26 E-value=6.6 Score=41.08 Aligned_cols=72 Identities=13% Similarity=0.066 Sum_probs=60.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhC---CCCHHHHHhhhCCChhHHHhhHHHHHHHHH
Q 009712 56 NAQQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQL---PTTAAKLRRLLKSKHSYIERYMGPVLSIIK 127 (528)
Q Consensus 56 s~rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~---PtS~~eLlrI~g~~~~~VRrhgdeILeIIr 127 (528)
.+...++++.|..++..+|.+.++|+..|++.+.|-.||-.. +.++.++++..|..+..+.-.++.|+.+|.
T Consensus 359 ~~~~~~~~~~l~~~~~~~a~~~~~~~~~l~~~~~l~~l~~~~~~~~~~~~~~l~~~g~~~Wr~~~~~~~~~~~~~ 433 (440)
T 3cym_A 359 YPERLQVLNRVRKAVSQIAEDTRTPVEIVIKPQYLRNLCWTDEPRKRDVARFLSEQGARDWQVSLVAESVSRAIE 433 (440)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHTCCHHHHSCHHHHHHHHCSSCGGGCCHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred ChhHHHHHHHHHHHHHHHHHHcCCCHHHcCCHHHHHHHhCcCCCChhhHhHHHhhccCCCchHHHHHHHHHHHHh
Confidence 345678999999999999999999999999999999999332 456788888788788887777888877764
No 13
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase, tRNA processing, hydrolase,translation; 1.60A {Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5
Probab=44.13 E-value=11 Score=38.20 Aligned_cols=69 Identities=7% Similarity=-0.012 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCH--HHHHhhhCCChhHHHhhHHHHHHHHH
Q 009712 57 AQQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTA--AKLRRLLKSKHSYIERYMGPVLSIIK 127 (528)
Q Consensus 57 ~rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~--~eLlrI~g~~~~~VRrhgdeILeIIr 127 (528)
+..-++++.|..|+..+|.+.++++..|++.+.|-.||...|.+. .++-.. ..+....-.+..|++++.
T Consensus 301 ~~~~~~~~~l~~~~~~~a~~~~~~~~~l~~~~~l~~l~~~~~~~~~~~~~~~~--l~~Wr~~~~~~~l~~~l~ 371 (375)
T 1yt3_A 301 PGYRKAFKAIKSLITDVSETHKISAELLASRRQINQLLNWHWKLKPQNNLPEL--ISGWRGELMAEALHNLLQ 371 (375)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHTCCHHHHCCHHHHHHHHHHHTTCSCCSSCCGG--GSHHHHHHHHHHHHHHHT
T ss_pred hhHHHHHHHHHHHHHHHHHHhCCCHHHcCCHHHHHHHHhhcccCCCcchhhhh--hcchHHHHHHHHHHHHHh
Confidence 466789999999999999999999999999999999997532111 111111 134444455666666653
No 14
>1go3_F DNA-directed RNA polymerase subunit F; transferase, transferase, transcription; 1.75A {Methanococcus jannaschii} SCOP: a.60.8.2
Probab=34.89 E-value=32 Score=29.59 Aligned_cols=42 Identities=21% Similarity=0.407 Sum_probs=35.2
Q ss_pred cChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHHHHHHHH
Q 009712 85 LPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPVLSIIKN 128 (528)
Q Consensus 85 LpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeILeIIr~ 128 (528)
|+...++.||.-+|.|.++++.+...-.. ....++||++|..
T Consensus 64 l~e~~a~~I~nl~P~t~dElraii~~~~~--~eel~~ILd~l~k 105 (107)
T 1go3_F 64 IDEKTAVKIADILPEDLDDLRAIYYKREL--PENAEEILEIVRK 105 (107)
T ss_dssp CCHHHHHHHHHHCCCSHHHHHHHSTTSCC--CTTHHHHHHHHTT
T ss_pred CCHHHHHHHHHhCCCCHHHHHHHHhcccC--cHHHHHHHHHHHH
Confidence 89999999999999999999998764432 7778888888754
No 15
>3ayh_A DNA-directed RNA polymerase III subunit RPC9; transcription; 2.19A {Schizosaccharomyces pombe}
Probab=29.78 E-value=79 Score=28.08 Aligned_cols=48 Identities=13% Similarity=0.256 Sum_probs=39.5
Q ss_pred CcccChHHHHHHHHhCCCCHHHHHhhhCCCh-hHHHhhHHHHHHHHHHH
Q 009712 82 GYVLPNRTLIEIAKQLPTTAAKLRRLLKSKH-SYIERYMGPVLSIIKNS 129 (528)
Q Consensus 82 ~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~-~~VRrhgdeILeIIr~A 129 (528)
.|-|...-++.|+...|+++.+|..|..-.. ++-....++||++|++.
T Consensus 86 ~~~Ltk~E~LqivNl~P~t~vel~~iIEe~e~Rfsee~ie~IL~~i~~~ 134 (136)
T 3ayh_A 86 EFELTKAEILVILNNKPSSVPELYACIEGIEERFKEEDIFKLVEKINTT 134 (136)
T ss_dssp TTCCCHHHHHHHHHHCCCSHHHHHHHSTTHHHHHTTTTHHHHHHHHHHH
T ss_pred hcCCCHHHHHHHhccCCCCHHHHHHHHHhcccCCCHHHHHHHHHHHHHh
Confidence 4899999999999999999999998865433 44466788999999865
No 16
>3hou_D DNA-directed RNA polymerase II subunit RPB4; RNA polymerase II, metal-binding, transcription bubble; HET: BRU; 3.20A {Saccharomyces cerevisiae} PDB: 1nt9_D 1y1w_D 1y1y_D 1y77_D* 2b63_D* 2b8k_D 2ja5_D* 2ja6_D* 2ja7_D* 2ja8_D* 2r7z_D 2r92_D 2r93_D 1y1v_D* 3fki_D 3h3v_E 2vum_D* 3hov_D* 3how_D* 3hox_D* ...
Probab=25.99 E-value=1.5e+02 Score=28.91 Aligned_cols=62 Identities=15% Similarity=0.140 Sum_probs=48.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCCh-hHHHhhHHHHHHHHHHHH
Q 009712 56 NAQQLAVVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKH-SYIERYMGPVLSIIKNSM 130 (528)
Q Consensus 56 s~rQLAVLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~-~~VRrhgdeILeIIr~A~ 130 (528)
++.....++.|+. .+.|+.-.++.||--+|.++++++.+..... .+-....+.||..|....
T Consensus 156 n~EAv~aVrELL~-------------~~gLheFEiAqLANLcPeTaDEARALIPSL~~k~sDEeLqeILdeLskyR 218 (221)
T 3hou_D 156 DQETVGAVIQLLK-------------STGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLE 218 (221)
T ss_dssp CHHHHHHHHHHHT-------------TSCCCHHHHHHHHHSCCCSHHHHHHHCTTCTTSSCHHHHHHHHHHHHHHS
T ss_pred cHHHHHHHHHHHH-------------hcCCChHHhheecccCCCCHHHHHHHHHhhcccCCHHHHHHHHHHHHHhh
Confidence 5666777777764 2788999999999999999999999876544 344677888888887754
No 17
>3s2w_A Transcriptional regulator, MARR family; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 2.45A {Methanosarcina mazei}
Probab=25.50 E-value=1.9e+02 Score=24.41 Aligned_cols=58 Identities=10% Similarity=0.015 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHhCCCCCcccChHHHHHHHHhCCCCHHHHHhhhCCChhHHHhhHHHH
Q 009712 62 VVAGLCEWRDVIARADDESTGYVLPNRTLIEIAKQLPTTAAKLRRLLKSKHSYIERYMGPV 122 (528)
Q Consensus 62 VLRaL~eWRD~iAReeDePp~yVLpDkaLLELAkq~PtS~~eLlrI~g~~~~~VRrhgdeI 122 (528)
+.+.+..+-+...+..++++... ..|..|+...|.+..+|....+..+..+.+..+.+
T Consensus 31 ~~~~~~~~~~~~l~~~~lt~~q~---~vL~~l~~~~~~t~~eLa~~l~~~~~tvs~~l~~L 88 (159)
T 3s2w_A 31 LYRYGQIYIGKKIEPYGIGSGQF---PFLMRLYREDGINQESLSDYLKIDKGTTARAIQKL 88 (159)
T ss_dssp HHHHHHHHHHHHHGGGTCCTTTH---HHHHHHHHSCSEEHHHHHHHHTCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCHHHH---HHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 44444455555555556655432 45555556666677777766666555555544444
No 18
>2c35_A Human RPB4, DNA-directed RNA polymerase II 16 kDa polypeptide; transcription, nucleotidyltransferase; 2.70A {Homo sapiens} SCOP: a.60.8.2
Probab=21.16 E-value=83 Score=28.60 Aligned_cols=48 Identities=21% Similarity=0.227 Sum_probs=37.5
Q ss_pred cccChHHHHHHHHhCCCCHHHHHhhhCCCh-hHHHhhHHHHHHHHHHHH
Q 009712 83 YVLPNRTLIEIAKQLPTTAAKLRRLLKSKH-SYIERYMGPVLSIIKNSM 130 (528)
Q Consensus 83 yVLpDkaLLELAkq~PtS~~eLlrI~g~~~-~~VRrhgdeILeIIr~A~ 130 (528)
+-|....++.||.-+|.|++++..+..... ++-....++||++|...+
T Consensus 100 ~~L~~~E~a~L~NL~P~t~dEar~lipsl~~r~sdEeLe~ILd~l~k~r 148 (152)
T 2c35_A 100 KKLHKFELACLANLCPETAEESKALIPSLEGRFEDEELQQILDDIQTKR 148 (152)
T ss_dssp SSCCHHHHHHHHHHCCSSHHHHHHHCGGGTTTSCHHHHHHHHHHHHHHC
T ss_pred cCCCHHHHHHhccCCCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHH
Confidence 459999999999999999999998864322 333567788888887654
No 19
>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B}
Probab=20.53 E-value=2.4e+02 Score=23.22 Aligned_cols=17 Identities=29% Similarity=0.218 Sum_probs=13.2
Q ss_pred CCCCHHHHHHHHHHHHH
Q 009712 53 AGLNAQQLAVVAGLCEW 69 (528)
Q Consensus 53 ~~Ls~rQLAVLRaL~eW 69 (528)
.++++.|+.||..|+..
T Consensus 27 ~~lt~~q~~iL~~l~~~ 43 (145)
T 3g3z_A 27 QDLNYNLFAVLYTLATE 43 (145)
T ss_dssp TTCCHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHC
Confidence 36888899998888653
Done!