Query 047960
Match_columns 371
No_of_seqs 268 out of 1497
Neff 7.0
Searched_HMMs 29240
Date Mon Mar 25 08:11:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047960.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/047960hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4b3f_X DNA-binding protein smu 100.0 4.9E-40 1.7E-44 346.9 16.6 197 2-207 435-638 (646)
2 2gk6_A Regulator of nonsense t 100.0 1.9E-34 6.5E-39 303.3 10.1 200 1-206 406-611 (624)
3 2xzl_A ATP-dependent helicase 100.0 3.3E-34 1.1E-38 308.7 11.2 200 1-206 584-789 (802)
4 2wjy_A Regulator of nonsense t 100.0 9.5E-34 3.3E-38 304.9 14.2 200 1-206 582-787 (800)
5 3dmn_A Putative DNA helicase; 99.3 7E-12 2.4E-16 110.8 12.4 144 4-181 2-154 (174)
6 3lfu_A DNA helicase II; SF1 he 98.5 6.4E-07 2.2E-11 93.4 12.0 88 1-112 277-364 (647)
7 3e1s_A Exodeoxyribonuclease V, 98.5 3.9E-08 1.3E-12 102.2 2.8 51 130-184 494-544 (574)
8 1pjr_A PCRA; DNA repair, DNA r 98.1 5.2E-06 1.8E-10 88.4 9.0 90 1-113 280-369 (724)
9 3upu_A ATP-dependent DNA helic 97.9 1.3E-05 4.5E-10 80.6 6.6 49 128-178 411-459 (459)
10 3vkw_A Replicase large subunit 97.8 5.5E-05 1.9E-09 76.0 9.0 138 2-199 297-435 (446)
11 1w36_D RECD, exodeoxyribonucle 96.8 0.00063 2.2E-08 70.9 3.5 54 125-182 531-584 (608)
12 1uaa_A REP helicase, protein ( 95.9 0.012 4.2E-07 61.6 7.2 94 1-117 271-364 (673)
13 3r3p_A MobIle intron protein; 95.8 0.0003 1E-08 56.8 -4.3 77 242-322 20-97 (105)
14 3hrl_A Endonuclease-like prote 95.1 0.00041 1.4E-08 55.7 -5.5 77 230-323 21-99 (104)
15 1uaa_A REP helicase, protein ( 94.8 0.011 3.7E-07 62.0 2.6 59 124-182 549-614 (673)
16 3u4q_A ATP-dependent helicase/ 93.0 0.052 1.8E-06 61.0 3.8 59 125-183 786-886 (1232)
17 1w36_B RECB, exodeoxyribonucle 91.9 0.045 1.5E-06 61.2 1.4 55 126-180 735-818 (1180)
18 3u4q_A ATP-dependent helicase/ 85.4 0.97 3.3E-05 50.7 6.3 114 1-117 472-604 (1232)
19 1cw0_A Protein (DNA mismatch e 83.2 0.13 4.4E-06 44.2 -1.6 85 239-323 32-138 (155)
20 1vsr_A Protein (VSR endonuclea 82.6 0.098 3.4E-06 43.9 -2.5 86 240-325 14-121 (136)
21 1w36_B RECB, exodeoxyribonucle 81.8 1.9 6.6E-05 48.1 6.7 112 1-117 441-573 (1180)
22 3u4q_B ATP-dependent helicase/ 80.0 3.8 0.00013 45.5 8.4 87 2-117 278-365 (1166)
23 1w36_C RECC, exodeoxyribonucle 72.3 7.5 0.00026 43.1 8.0 76 124-199 656-757 (1122)
24 3u4q_B ATP-dependent helicase/ 70.3 19 0.00064 39.9 10.7 73 124-196 585-691 (1166)
25 3lfu_A DNA helicase II; SF1 he 50.5 17 0.00057 37.0 5.3 47 88-135 47-93 (647)
26 1pjr_A PCRA; DNA repair, DNA r 43.0 22 0.00074 37.3 4.8 47 88-135 49-95 (724)
27 3vkw_A Replicase large subunit 42.7 17 0.00057 36.2 3.7 81 96-185 185-273 (446)
28 1tvm_A PTS system, galactitol- 26.6 98 0.0033 24.1 5.2 54 94-147 20-77 (113)
29 2nxv_A ATP synthase subunits r 25.9 2.5E+02 0.0087 24.3 8.5 85 97-199 17-101 (249)
No 1
>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A
Probab=100.00 E-value=4.9e-40 Score=346.89 Aligned_cols=197 Identities=29% Similarity=0.403 Sum_probs=164.2
Q ss_pred ccccccCCchhhhhcchhhccCCccccCccccCCCCc----ccCCCCCCCcEEEEEcCCCe--eeecCCCCCccCHHHHH
Q 047960 2 LLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLPDE----VYYKDPVLRPYVFFDVIHGR--ESHRGGSVSYQNVDEAK 75 (371)
Q Consensus 2 ~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~~~----~~~~~~~~~p~~f~~v~~g~--~~~~~~~~S~~N~~EA~ 75 (371)
+|++||||||+|++|+|+.||+|+|.+++++...... .........|+.|+++.+.. +.....+.|+.|..||+
T Consensus 435 ~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~lp~~~~~~~~~~p~~f~d~~g~~~~~~~~~~~~s~~N~~EA~ 514 (646)
T 4b3f_X 435 TLTVQYRMHQAIMRWASDTMYLGQLTAHSSVARHLLRDLPGVAATEETGVPLLLVDTAGCGLFELEEEDEQSKGNPGEVR 514 (646)
T ss_dssp ECCEESSSCHHHHHHHHHHHSTTCCEECTTTTTCCGGGSTTCCCCTTTTCSEEEEECTTSSCCCCC-----CCCCHHHHH
T ss_pred ecccccCCcHHHHhhhHHhhcCCccccCcchhhhhhccccccccccccCCceEEEecCCCccccccccCCccccCHHHHH
Confidence 7999999999999999999999999988766542211 11122335689999998642 23344456899999999
Q ss_pred HHHHHHHHHHHHHHhcCCCCceEEEEcccHHHHHHHHHHHHhhhccCCCCCeEEccccCCCCccccEEEEEccccCCC-C
Q 047960 76 FGVCLYEHLQKTLKSMGLGKVTVGIITPYKLQLKCLQHEFRNVLNSEEGKDLYINTVDAFQGQERDVIIMSCVRASNH-G 154 (371)
Q Consensus 76 ~Vv~lv~~l~~~l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~~~~~~~~~~i~V~TVd~fQG~ErDVIIiS~vrs~~~-~ 154 (371)
.|+.+++.|.+. |+++.+|||||||++|+.+|++.|.+. ...+.|+|||+|||+|+||||||+|+++.. .
T Consensus 515 ~V~~~v~~L~~~----gv~~~dIgVItpYraQ~~~l~~~l~~~-----~~~i~v~TVd~fQG~E~dvII~S~vrsn~~~~ 585 (646)
T 4b3f_X 515 LVSLHIQALVDA----GVPARDIAVVSPYNLQVDLLRQSLVHR-----HPELEIKSVDGFQGREKEAVILSFVRSNRKGE 585 (646)
T ss_dssp HHHHHHHHHHHH----TCCGGGEEEEESCHHHHHHHHHHHTTT-----CTTCEEEEGGGGTTCCEEEEEEECCCCCTTCC
T ss_pred HHHHHHHHHHhc----CCCcCcEEEECCCHHHHHHHHHHHHHh-----CCCCEECChhhcccccCCEEEEEeccCCCCCC
Confidence 999998887653 789999999999999999999888642 347899999999999999999999999864 4
Q ss_pred ccCCCCCCchhhhhHhhcccEEEEeecccccCCchHHHHHHHHHhCCceeccC
Q 047960 155 VGFVADIRRMNVALTRARRALWVMGNAGALTQSDDWAALIADSKARNCYMDMD 207 (371)
Q Consensus 155 ~gfl~d~rRLNVAlSRAK~~liVvGn~~~L~~~~~w~~ll~~a~~~~~~~~~~ 207 (371)
+||+.++||||||+||||.+||||||..+|+.++.|++|++|+++++++...-
T Consensus 586 iGFl~~~rRlNVAlTRAk~~liivGn~~~l~~~~~~~~li~~~~~~g~~~~~~ 638 (646)
T 4b3f_X 586 VGFLAEDRRINVAVTRARRHVAVICDSRTVNNHAFLKTLVEYFTQHGEVRTAF 638 (646)
T ss_dssp CCSTTCHHHHHHHHHTEEEEEEEEECHHHHTTSHHHHHHHHHHHHSSEEEEGG
T ss_pred ccccCCcCcEEeEhhhhhCeEEEEEchHHhcCCHHHHHHHHHHHHCCCEeeHH
Confidence 99999999999999999999999999999999999999999999999987653
No 2
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A
Probab=100.00 E-value=1.9e-34 Score=303.27 Aligned_cols=200 Identities=37% Similarity=0.569 Sum_probs=159.7
Q ss_pred CccccccCCchhhhhcchhhccCCccccCccccCCC-Cc--ccCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHH
Q 047960 1 MLLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLP-DE--VYYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFG 77 (371)
Q Consensus 1 i~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~-~~--~~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~V 77 (371)
++|++||||||+|++|+|+.||+|+|.+++...... .. ..++ ....|+.|+++. |.+.....+.|+.|..||+.|
T Consensus 406 ~~L~~qYR~~~~I~~~~n~~fY~~~L~~~~~~~~r~~~~~~~~~~-~~~~p~~~~~~~-g~~~~~~~~~s~~N~~Ea~~v 483 (624)
T 2gk6_A 406 IRLQVQYRMHPALSAFPSNIFYEGSLQNGVTAADRVKKGFDFQWP-QPDKPMFFYVTQ-GQEEIASSGTSYLNRTEAANV 483 (624)
T ss_dssp EECCEECSSCHHHHHHHHHHHSTTCCEESSCTGGGCCTTCCCCCS-STTCCEEEEECC-CCEECCTTSSCCEEHHHHHHH
T ss_pred EEehhhhCcChhHHhhhHHhhcCcccccCCchhhhcccccCCCCC-CCCCCEEEEEcC-CcceecCCCCCccCHHHHHHH
Confidence 479999999999999999999999998766543211 11 0111 124688888876 444444556688999999999
Q ss_pred HHHHHHHHHHHHhcCCCCceEEEEcccHHHHHHHHHHHHhhhc--cCCCCCeEEccccCCCCccccEEEEEccccCCC-C
Q 047960 78 VCLYEHLQKTLKSMGLGKVTVGIITPYKLQLKCLQHEFRNVLN--SEEGKDLYINTVDAFQGQERDVIIMSCVRASNH-G 154 (371)
Q Consensus 78 v~lv~~l~~~l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~~~~--~~~~~~i~V~TVd~fQG~ErDVIIiS~vrs~~~-~ 154 (371)
++++..+.+ .++++.+|||||||++|+.+|++.|..... ......+.|+|||.|||+|+|+||+|+|+++.. +
T Consensus 484 ~~~v~~l~~----~g~~~~dIgVItpy~~Q~~~i~~~l~~~~~~~~~~~~~v~v~TVd~fQG~E~dvVIls~vrs~~~~~ 559 (624)
T 2gk6_A 484 EKITTKLLK----AGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQG 559 (624)
T ss_dssp HHHHHHHHT----TTCCGGGEEEECSCHHHHHHHHHHHHHSCSSCHHHHHHSEEECHHHHTTCCEEEEEEEECC------
T ss_pred HHHHHHHHH----cCCCCCeEEEEcCCHHHHHHHHHHHHhhccccccccCceEEechhhcCCcccCEEEEEeecCCCCCC
Confidence 988877643 478889999999999999999988864211 011236899999999999999999999998864 5
Q ss_pred ccCCCCCCchhhhhHhhcccEEEEeecccccCCchHHHHHHHHHhCCceecc
Q 047960 155 VGFVADIRRMNVALTRARRALWVMGNAGALTQSDDWAALIADSKARNCYMDM 206 (371)
Q Consensus 155 ~gfl~d~rRLNVAlSRAK~~liVvGn~~~L~~~~~w~~ll~~a~~~~~~~~~ 206 (371)
+||+.++||||||+||||.+|+||||...|..++.|+.++++|++++|+++.
T Consensus 560 ~gfl~~~~rlnVAlTRAk~~L~ivg~~~~l~~~~~~~~li~~~~~~~~~~~~ 611 (624)
T 2gk6_A 560 IGFLNDPRRLNVALTRARYGVIIVGNPKALSKQPLWNHLLNYYKEQKVLVEG 611 (624)
T ss_dssp CCTTTCHHHHHHHTTSEEEEEEEEECHHHHTTSHHHHHHHHHHHHTTCCCCS
T ss_pred ccccCCcceeeeehhhhhCcEEEEECHHHHccChHHHHHHHHHHHCCCEEeC
Confidence 8999999999999999999999999999999999999999999999999765
No 3
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}
Probab=100.00 E-value=3.3e-34 Score=308.75 Aligned_cols=200 Identities=32% Similarity=0.517 Sum_probs=164.3
Q ss_pred CccccccCCchhhhhcchhhccCCccccCccccCCCCc--c-cCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHH
Q 047960 1 MLLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLPDE--V-YYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFG 77 (371)
Q Consensus 1 i~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~~~--~-~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~V 77 (371)
++|++||||||+|++|+|+.||+|+|.++++....... . .++ ....|+.|+++.+ .+.....+.|+.|..||+.|
T Consensus 584 ~~L~~qYRm~p~I~~f~n~~fY~g~L~~~~~~~~r~~~~~~~~~~-~~~~p~~f~~~~g-~~~~~~~~~s~~N~~EA~~V 661 (802)
T 2xzl_A 584 IRLEVQYRMNPYLSEFPSNMFYEGSLQNGVTIEQRTVPNSKFPWP-IRGIPMMFWANYG-REEISANGTSFLNRIEAMNC 661 (802)
T ss_dssp EECCEECSSCHHHHHHHHHHHSTTCCEESSCTTTTCCTTCCCCCS-STTCCEEEEECCC-CCEECTTSSSEECHHHHHHH
T ss_pred eEeeeecCCChHHHHHHHHHhcCCccccCCchhhhccccccCCCC-CCCCCEEEEEcCC-ceeecCCCCCcCCHHHHHHH
Confidence 47999999999999999999999999877654322110 0 111 1246888988764 34444556689999999999
Q ss_pred HHHHHHHHHHHHhcCCCCceEEEEcccHHHHHHHHHHHHhhh--ccCCCCCeEEccccCCCCccccEEEEEccccCC-CC
Q 047960 78 VCLYEHLQKTLKSMGLGKVTVGIITPYKLQLKCLQHEFRNVL--NSEEGKDLYINTVDAFQGQERDVIIMSCVRASN-HG 154 (371)
Q Consensus 78 v~lv~~l~~~l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~~~--~~~~~~~i~V~TVd~fQG~ErDVIIiS~vrs~~-~~ 154 (371)
++++..+.+ .++++.+|||||||++|+.+|++.|.+.- .......+.|+|||+|||+|+|+||||+|+++. ..
T Consensus 662 ~~~v~~L~~----~g~~~~~IgVItpy~~Q~~~I~~~L~~~~~l~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs~~~~~ 737 (802)
T 2xzl_A 662 ERIITKLFR----DGVKPEQIGVITPYEGQRAYILQYMQMNGSLDKDLYIKVEVASVDAFQGREKDYIILSCVRANEQQA 737 (802)
T ss_dssp HHHHHHHHH----TTCCGGGEEEEESCHHHHHHHHHHHHHHCSSCHHHHHTSEEEEHHHHTTCCEEEEEEECCCCCTTCC
T ss_pred HHHHHHHHH----cCCCcccEEEEcccHHHHHHHHHHHHHccccccccccceEEcchhhcCCCccCEEEEEeccCCCCCC
Confidence 998887754 37888999999999999999999886531 111124789999999999999999999999885 35
Q ss_pred ccCCCCCCchhhhhHhhcccEEEEeecccccCCchHHHHHHHHHhCCceecc
Q 047960 155 VGFVADIRRMNVALTRARRALWVMGNAGALTQSDDWAALIADSKARNCYMDM 206 (371)
Q Consensus 155 ~gfl~d~rRLNVAlSRAK~~liVvGn~~~L~~~~~w~~ll~~a~~~~~~~~~ 206 (371)
+||+.++||||||+||||.+|+||||..+|..++.|+.|++++++++++++.
T Consensus 738 ~gfl~d~rrLNVAlTRAk~~LiIvg~~~~l~~~~~w~~ll~~~~~~~~~~~~ 789 (802)
T 2xzl_A 738 IGFLRDPRRLNVGLTRAKYGLVILGNPRSLARNTLWNHLLIHFREKGCLVEG 789 (802)
T ss_dssp CGGGGCHHHHHHHHSSEEEEEEEEECHHHHTTSHHHHHHHHHHHHHTCEEEE
T ss_pred cccccCccceeeeHhhhhCeEEEEECHHHhccChHHHHHHHHHHHcCCeecC
Confidence 8999999999999999999999999999999999999999999999999875
No 4
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A
Probab=100.00 E-value=9.5e-34 Score=304.92 Aligned_cols=200 Identities=36% Similarity=0.555 Sum_probs=164.4
Q ss_pred CccccccCCchhhhhcchhhccCCccccCccccCCC-Cc--ccCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHH
Q 047960 1 MLLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLP-DE--VYYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFG 77 (371)
Q Consensus 1 i~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~-~~--~~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~V 77 (371)
++|++||||||+|++|+|+.||+|+|.+++...... .. ..++ ....|+.|+++.+ .+.....+.|+.|..||+.|
T Consensus 582 ~~L~~qYRm~p~I~~f~n~~fY~g~L~~~~~~~~r~~~~~~~~~~-~~~~p~~f~~~~g-~e~~~~~~~S~~N~~Ea~~V 659 (800)
T 2wjy_A 582 IRLQVQYRMHPALSAFPSNIFYEGSLQNGVTAADRVKKGFDFQWP-QPDKPMFFYVTQG-QEEIASSGTSYLNRTEAANV 659 (800)
T ss_dssp EECCEECSSCHHHHHHHHHHHSTTCCEESSCSGGGSCTTCCCCCS-STTSCEEEEECCC-CCEECSSBSCEECHHHHHHH
T ss_pred eEehhhcCCCcHHHHhhHHHhcCCccccCCchhhhcccccccccc-CCCCCEEEEEcCC-ceeecCCCCcccCHHHHHHH
Confidence 479999999999999999999999998776543211 11 0111 1346889998864 34444556789999999999
Q ss_pred HHHHHHHHHHHHhcCCCCceEEEEcccHHHHHHHHHHHHhhhc--cCCCCCeEEccccCCCCccccEEEEEccccCCC-C
Q 047960 78 VCLYEHLQKTLKSMGLGKVTVGIITPYKLQLKCLQHEFRNVLN--SEEGKDLYINTVDAFQGQERDVIIMSCVRASNH-G 154 (371)
Q Consensus 78 v~lv~~l~~~l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~~~~--~~~~~~i~V~TVd~fQG~ErDVIIiS~vrs~~~-~ 154 (371)
++++..+.+ .++++.+|||||||++|+.+|++.|.+... ......+.|.|||.|||+|+|+||+|+|+++.. +
T Consensus 660 ~~~v~~L~~----~g~~~~dIgVItPy~~Q~~~I~~~L~~~~~~~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs~~~~~ 735 (800)
T 2wjy_A 660 EKITTKLLK----AGAKPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQG 735 (800)
T ss_dssp HHHHHHHHH----TTCCGGGEEEECSCHHHHHHHHHHHHHHCSSCHHHHHTSEEECGGGGTTCCEEEEEEECCCCSCCCC
T ss_pred HHHHHHHHH----cCCCcccEEEEeccHHHHHHHHHHHHhcCcccccccCceEEccccccCCCcCCEEEEEecCCCCccc
Confidence 999887754 378889999999999999999998865321 111246899999999999999999999998864 4
Q ss_pred ccCCCCCCchhhhhHhhcccEEEEeecccccCCchHHHHHHHHHhCCceecc
Q 047960 155 VGFVADIRRMNVALTRARRALWVMGNAGALTQSDDWAALIADSKARNCYMDM 206 (371)
Q Consensus 155 ~gfl~d~rRLNVAlSRAK~~liVvGn~~~L~~~~~w~~ll~~a~~~~~~~~~ 206 (371)
+||+.++||||||+||||.+|+||||...|..++.|+.++++++++++++..
T Consensus 736 ~gfl~d~rrLNVAlTRAk~~LiIvG~~~~l~~~~~w~~ll~~~~~~~~~~~~ 787 (800)
T 2wjy_A 736 IGFLNDPRRLNVALTRARYGVIIVGNPKALSKQPLWNHLLNYYKEQKVLVEG 787 (800)
T ss_dssp CGGGTCHHHHHHHHTSEEEEEEEEECHHHHTSSHHHHHHHHHHHHTTCEEES
T ss_pred cccccCcchhhhhHHhhhccEEEEECHHHhccCHHHHHHHHHHHHCCCEEeC
Confidence 8999999999999999999999999999999999999999999999999865
No 5
>3dmn_A Putative DNA helicase; APC89291.2, lactobacillus plantarum WCFS1, STR genomics, PSI-2, midwest center for structural genomics; HET: MSE; 1.66A {Lactobacillus plantarum}
Probab=99.34 E-value=7e-12 Score=110.80 Aligned_cols=144 Identities=14% Similarity=0.083 Sum_probs=97.3
Q ss_pred ccccCCchhhhhcchhhccCCccccCccccCCCCcccCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHHHHHHHH
Q 047960 4 SVQYRMHPHIRDFPSRHFYQGRLTDSESVINLPDEVYYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFGVCLYEH 83 (371)
Q Consensus 4 ~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~~~~~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~Vv~lv~~ 83 (371)
+.+||+.++|.+|.|+.+.++.-. . +. ......| .+.... ....|++.|++.+..
T Consensus 2 ~~NYRSt~~Il~~An~li~~~~~~-----~--~~----~~~G~~p-~~~~~~-------------~~~~e~~~i~~~I~~ 56 (174)
T 3dmn_A 2 NASYRSTQQITDFTKEILVNGEAV-----T--AF----DRQGDLP-NVVVTP-------------NFEAGVDQVVDQLAM 56 (174)
T ss_dssp -CCCCCCHHHHHHHHTTSCC-------------------CCCCCC-EEEEES-------------SHHHHHHHHHHHHHH
T ss_pred CCCCCChHHHHHHHHHHhcCCCcc-----c--CC----CCCCCCC-EEEEeC-------------CHHHHHHHHHHHHHH
Confidence 579999999999999877654210 0 00 0011112 222221 124678888877655
Q ss_pred HHHHHHhcCCCCceEEEEcccHHHHHHHHHHHHhh------hcc---CCCCCeEEccccCCCCccccEEEEEccccCCCC
Q 047960 84 LQKTLKSMGLGKVTVGIITPYKLQLKCLQHEFRNV------LNS---EEGKDLYINTVDAFQGQERDVIIMSCVRASNHG 154 (371)
Q Consensus 84 l~~~l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~~------~~~---~~~~~i~V~TVd~fQG~ErDVIIiS~vrs~~~~ 154 (371)
.. .+ ..+|+||++...|...|.+.|... +.. .....+.|.|++.++|.|+|.||+..+....
T Consensus 57 -~~----~g--~~~iAVL~r~~~~~~~l~~~L~~~gi~~~~l~~~~~~~~~~v~v~t~~~~KGlEf~~V~~~~~~~~~-- 127 (174)
T 3dmn_A 57 -ND----SE--RDTTAIIGKSLAECEALTKALKARGEQVTLIQTENQRLAPGVIVVPSFLAKGLEFDAVIVWNANQEN-- 127 (174)
T ss_dssp -HH----HT--TCCEEEEESSHHHHHHHHHHHHTTTCCEEECSSCC-CCCSSEEEEEGGGCTTCCEEEEEEETCBTTT--
T ss_pred -hc----cC--CCcEEEEecCHHHHHHHHHHHHHcCCcceeecccccccCCCeEEEEccccCCcCCCEEEEecCCccc--
Confidence 22 13 579999999999999999988764 111 1134799999999999999999998654432
Q ss_pred ccCCCCCCchhhhhHhhcccEEEEeec
Q 047960 155 VGFVADIRRMNVALTRARRALWVMGNA 181 (371)
Q Consensus 155 ~gfl~d~rRLNVAlSRAK~~liVvGn~ 181 (371)
.....+.+.|+||+||||+.|+|+++.
T Consensus 128 ~~~~~~~~llYva~TRA~~~l~~~~~~ 154 (174)
T 3dmn_A 128 YQREDERQLLYTICSRAMHELTLVAVG 154 (174)
T ss_dssp SCSGGGHHHHHHHHTTEEEEEEEEEES
T ss_pred CCChhhhceeEEEecCcccEEEEEeCC
Confidence 122346789999999999999999864
No 6
>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*
Probab=98.48 E-value=6.4e-07 Score=93.36 Aligned_cols=88 Identities=17% Similarity=0.164 Sum_probs=57.6
Q ss_pred CccccccCCchhhhhcchhhccCCccccCccccCCCCcccCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHHHHH
Q 047960 1 MLLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLPDEVYYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFGVCL 80 (371)
Q Consensus 1 i~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~~~~~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~Vv~l 80 (371)
+.|+.+|||+|.|.++.|..|+.+......... .......++.++... ....||+.|+..
T Consensus 277 ~~L~~nyRs~~~I~~~~n~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~-------------~~~~e~~~ia~~ 336 (647)
T 3lfu_A 277 IRLEQNYRSTSNILSAANALIENNNGRLGKKLW-------TDGADGEPISLYCAF-------------NELDEARFVVNR 336 (647)
T ss_dssp EEECBCSSSCHHHHHHHHHHHTTCSSCCCCCCB-------CSSCCCCCEEEEEEE-------------EHHHHHHHHHHH
T ss_pred EEcccCCCCCHHHHHHHHHHHHhcccccCCccc-------cCCCCCCceEEEecC-------------ChHHHHHHHHHH
Confidence 368999999999999999999976533211110 011112234444322 245789988887
Q ss_pred HHHHHHHHHhcCCCCceEEEEcccHHHHHHHH
Q 047960 81 YEHLQKTLKSMGLGKVTVGIITPYKLQLKCLQ 112 (371)
Q Consensus 81 v~~l~~~l~~~~~~~~sIgVITpy~aQ~~~I~ 112 (371)
+..+.. .|++..+|+|+++++.|...|.
T Consensus 337 I~~l~~----~g~~~~diaVL~r~~~~~~~l~ 364 (647)
T 3lfu_A 337 IKTWQD----NGGALAECAILYRSNAQSRVLE 364 (647)
T ss_dssp HHHHHH----TTCCGGGEEEEESSGGGHHHHH
T ss_pred HHHHHH----cCCCccCEEEEEeCchhHHHHH
Confidence 776643 4788899999999987764433
No 7
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*
Probab=98.48 E-value=3.9e-08 Score=102.21 Aligned_cols=51 Identities=29% Similarity=0.248 Sum_probs=43.8
Q ss_pred ccccCCCCccccEEEEEccccCCCCccCCCCCCchhhhhHhhcccEEEEeecccc
Q 047960 130 NTVDAFQGQERDVIIMSCVRASNHGVGFVADIRRMNVALTRARRALWVMGNAGAL 184 (371)
Q Consensus 130 ~TVd~fQG~ErDVIIiS~vrs~~~~~gfl~d~rRLNVAlSRAK~~liVvGn~~~L 184 (371)
.||+.+||.|+|.||+.+.... ..+.+.+.++||+||||+.++|+|+...+
T Consensus 494 ~TIHksQGsEfd~Vil~l~~~~----~~~l~r~LlYvAiTRAk~~l~lvg~~~~l 544 (574)
T 3e1s_A 494 LTVHRAQGSEWGTVLGVLHEAH----MPMLSRNLVYTALTRARDRFFSAGSASAW 544 (574)
T ss_dssp EEHHHHTTCCEEEEEEEECGGG----GGGCCHHHHHHHHHTEEEEEEEEECHHHH
T ss_pred eeHHHhCCccCCeEEEEcCCcc----ccccccceEEEEeeeeeeEEEEEECHHHH
Confidence 5999999999999999876542 24567899999999999999999998754
No 8
>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP- binding, DNA-binding; 2.50A {Geobacillus stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C* 2pjr_B*
Probab=98.11 E-value=5.2e-06 Score=88.37 Aligned_cols=90 Identities=13% Similarity=0.239 Sum_probs=56.9
Q ss_pred CccccccCCchhhhhcchhhccCCccccCccccCCCCcccCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHHHHH
Q 047960 1 MLLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLPDEVYYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFGVCL 80 (371)
Q Consensus 1 i~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~~~~~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~Vv~l 80 (371)
+.|..+|||++.|.++.|..|.++.-..... .+...+...++.++... ....||+.|+..
T Consensus 280 i~L~~NyRSt~~Il~~an~li~~n~~~~~k~-------l~~~~~~g~~i~~~~~~-------------~~~~Ea~~va~~ 339 (724)
T 1pjr_A 280 ILLEQNYRSTKRILQAANEVIEHNVNRKPKR-------IWTENPEGKPILYYEAM-------------NEADEAQFVAGR 339 (724)
T ss_dssp EEECBCSSSCHHHHHHHHHHHTTCSSCCCCC-------CBCSSCCCCCEEEEEEE-------------EHHHHHHHHHHH
T ss_pred EECCCCCCCCHHHHHHHHHHHHhCccccCcc-------cccccCCCCceEEEecC-------------CHHHHHHHHHHH
Confidence 4689999999999999999988764321111 00011112344444322 235788888877
Q ss_pred HHHHHHHHHhcCCCCceEEEEcccHHHHHHHHH
Q 047960 81 YEHLQKTLKSMGLGKVTVGIITPYKLQLKCLQH 113 (371)
Q Consensus 81 v~~l~~~l~~~~~~~~sIgVITpy~aQ~~~I~~ 113 (371)
+..+. ...|++..+|+|+++.++|...|.+
T Consensus 340 I~~l~---~~~g~~~~diAIL~R~~~~~~~le~ 369 (724)
T 1pjr_A 340 IREAV---ERGERRYRDFAVLYRTNAQSRVMEE 369 (724)
T ss_dssp HHHHH---TTTSCCGGGEEEEESSGGGHHHHHH
T ss_pred HHHHH---HhcCCChhheeeeeecchhHHHHHH
Confidence 66553 2246788899999998877655443
No 9
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Probab=97.89 E-value=1.3e-05 Score=80.59 Aligned_cols=49 Identities=16% Similarity=0.125 Sum_probs=35.9
Q ss_pred EEccccCCCCccccEEEEEccccCCCCccCCCCCCchhhhhHhhcccEEEE
Q 047960 128 YINTVDAFQGQERDVIIMSCVRASNHGVGFVADIRRMNVALTRARRALWVM 178 (371)
Q Consensus 128 ~V~TVd~fQG~ErDVIIiS~vrs~~~~~gfl~d~rRLNVAlSRAK~~liVv 178 (371)
.+.|++..||.|+|.||+....... .......|.++||+||||+.|++|
T Consensus 411 ~~~t~h~~kG~e~~~v~~~~~~~~~--~~~~~~~~~~yva~tRa~~~l~~~ 459 (459)
T 3upu_A 411 PASTFHKAQGMSVDRAFIYTPCIHY--ADVELAQQLLYVGVTRGRYDVFYV 459 (459)
T ss_dssp SEEETGGGTTCCEEEEEEECGGGGG--SCHHHHHHHHHHHHHHEEEEEEEC
T ss_pred EEEEEEeccCCCCCEEEEecCCCCC--cChHHHhheeeeeecceeeEEEeC
Confidence 3568999999999999997543221 011123577999999999999875
No 10
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}
Probab=97.78 E-value=5.5e-05 Score=75.98 Aligned_cols=138 Identities=16% Similarity=0.128 Sum_probs=84.3
Q ss_pred ccccccCCchhhhhcchhhccCCccccCccccCCCCcccCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHHHHHH
Q 047960 2 LLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLPDEVYYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFGVCLY 81 (371)
Q Consensus 2 ~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~~~~~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~Vv~lv 81 (371)
.++++|||.+.++.|.|.. |++++.+... ....+.+..+.+... .+.
T Consensus 297 ~~~~SyR~p~dv~~lLs~l-Y~~~V~t~s~-------------~~~sv~~~~I~~~~~---------~~~---------- 343 (446)
T 3vkw_A 297 TRRTTLRCPADVTHFLNQR-YEGHVMCTSS-------------EKKSVSQEMVSGAAS---------INP---------- 343 (446)
T ss_dssp EECEESSCCHHHHHHHHTT-SSSCCEECCC-------------CCCCEEEEECCCGGG---------CCT----------
T ss_pred EeeeEeCCCHHHHHHHHhh-cCCceEECCC-------------cCceEEEeccccccc---------ccc----------
Confidence 3678999999999999875 8776642211 012334443331100 000
Q ss_pred HHHHHHHHhcCCCCceEEEEcccHHHHHHHHHHHHhhhccCCCCCeE-EccccCCCCccccEEEEEccccCCCCccCCCC
Q 047960 82 EHLQKTLKSMGLGKVTVGIITPYKLQLKCLQHEFRNVLNSEEGKDLY-INTVDAFQGQERDVIIMSCVRASNHGVGFVAD 160 (371)
Q Consensus 82 ~~l~~~l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~~~~~~~~~~i~-V~TVd~fQG~ErDVIIiS~vrs~~~~~gfl~d 160 (371)
...++ .--|||+..+.+.++.+ + .+. +.|++++||.|+|.|.+-.....+ ...+..+
T Consensus 344 ---------~~~~~-~g~iLtftq~~k~~L~~--------~---G~~~~~Tv~e~QG~tf~~Vtlvr~~~~~-~~l~~~~ 401 (446)
T 3vkw_A 344 ---------VSKPL-KGKILTFTQSDKEALLS--------R---GYADVHTVHEVQGETYADVSLVRLTPTP-VSIIARD 401 (446)
T ss_dssp ---------TTSCC-CSEEEESSHHHHHHHHT--------T---TCCSCEETGGGTTCCEEEEEEEECCCSC-CTTCSTT
T ss_pred ---------ccCCC-CCeEEEcCHHHHHHHHH--------h---CCCCccCHHHcCCcccCeEEEEECCCCC-cccccCC
Confidence 00111 22467777766665542 1 233 899999999999988874332221 1223347
Q ss_pred CCchhhhhHhhcccEEEEeecccccCCchHHHHHHHHHh
Q 047960 161 IRRMNVALTRARRALWVMGNAGALTQSDDWAALIADSKA 199 (371)
Q Consensus 161 ~rRLNVAlSRAK~~liVvGn~~~L~~~~~w~~ll~~a~~ 199 (371)
...++||+||||..|.++.-. .+.|-+.|..+..
T Consensus 402 ~~~~~VALTRh~~~L~~~tv~-----~D~~~~~i~~~~~ 435 (446)
T 3vkw_A 402 SPHVLVSLSRHTKSLKYYTVV-----MDPLVSIIRDLER 435 (446)
T ss_dssp CHHHHHHHSSEEEEEEEEESS-----CCHHHHHHHHHHH
T ss_pred ccceEEEeecCCCEEEEEEec-----CChHHHHHHHhhh
Confidence 889999999999999998532 4567777776654
No 11
>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*
Probab=96.76 E-value=0.00063 Score=70.92 Aligned_cols=54 Identities=26% Similarity=0.218 Sum_probs=44.5
Q ss_pred CCeEEccccCCCCccccEEEEEccccCCCCccCCCCCCchhhhhHhhcccEEEEeecc
Q 047960 125 KDLYINTVDAFQGQERDVIIMSCVRASNHGVGFVADIRRMNVALTRARRALWVMGNAG 182 (371)
Q Consensus 125 ~~i~V~TVd~fQG~ErDVIIiS~vrs~~~~~gfl~d~rRLNVAlSRAK~~liVvGn~~ 182 (371)
....+.|++..||.|.|.||+....... .+.+.+.++||+||||+.++++++..
T Consensus 531 ~~~~a~TihksqG~e~~~v~~~~~~~~~----~~~~~~~~Yva~tRa~~~l~l~~~~~ 584 (608)
T 1w36_D 531 ETTWAMTVHKSQGSEFDHAALILPSQRT----PVVTRELVYTAVTRARRRLSLYADER 584 (608)
T ss_dssp SSCSEEETTTTTTCCBSEEEEECCSSCC----SSSCHHHHHHHHTTBSSCEEEECCTT
T ss_pred ceEEEEEEEecccccCCeEEEEeCCCcc----chhhhhhHHhhhhhhhceEEEEECHH
Confidence 4567889999999999999998654322 24577899999999999999999765
No 12
>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex (helicase/DNA), DNA unwinding, hydrolase/DNA complex; HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19
Probab=95.85 E-value=0.012 Score=61.56 Aligned_cols=94 Identities=9% Similarity=-0.074 Sum_probs=62.0
Q ss_pred CccccccCCchhhhhcchhhccCCccccCccccCCCCcccCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHHHHH
Q 047960 1 MLLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLPDEVYYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFGVCL 80 (371)
Q Consensus 1 i~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~~~~~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~Vv~l 80 (371)
+.|..+|||+++|.++.|..|..+.-.... ......+...++.++... ....||+.|+..
T Consensus 271 ~~L~~nyRs~~~I~~~an~~~~~~~~~~~~-------~l~~~~~~g~~i~~~~~~-------------~~~~e~~~va~~ 330 (673)
T 1uaa_A 271 IKLEQNYRSSGRILKAANILIANNPHVFEK-------RLFSELGYGAELKVLSAN-------------NEEHEAERVTGE 330 (673)
T ss_dssp ECCCCBSSSCHHHHHHHHHHHHTSCCSSCC-------CCCBSSCCCCCBEEEECS-------------SHHHHHHHHHHH
T ss_pred EECCCCCCCChHHHHHHHHHHHhchhcccc-------cccccCCCCCCceEEecC-------------CHHHHHHHHHHH
Confidence 358999999999999999988765322110 000001111233333222 235788888887
Q ss_pred HHHHHHHHHhcCCCCceEEEEcccHHHHHHHHHHHHh
Q 047960 81 YEHLQKTLKSMGLGKVTVGIITPYKLQLKCLQHEFRN 117 (371)
Q Consensus 81 v~~l~~~l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~ 117 (371)
+..+.. ..+++..+|+|+++.+.|...|.+.|.+
T Consensus 331 I~~l~~---~~g~~~~diaVL~r~~~~~~~l~~~L~~ 364 (673)
T 1uaa_A 331 LIAHHF---VNKTQYKDYAILYRGNHQSRVFEKFLMQ 364 (673)
T ss_dssp HHHHHH---HHCCCTTTEEEEESSSGGGTTHHHHHHH
T ss_pred HHHHHh---ccCCCccCEEEEEechhhHHHHHHHHHH
Confidence 766642 2378889999999999999988888865
No 13
>3r3p_A MobIle intron protein; homing endonuclease, hydrolase; 2.20A {Bacillus phage 0305phi8-36}
Probab=95.77 E-value=0.0003 Score=56.78 Aligned_cols=77 Identities=9% Similarity=-0.002 Sum_probs=60.0
Q ss_pred CcccccccCCCCCCCCCCCCCCCc-cccCCCCCCCCCCcccccccccccccccccccccccccccCCCCCCCCchHHHHH
Q 047960 242 GQRHRSFDMNMESRSGTPSEDDEK-VSRNGNYRPFKPPLENSLDDFDQSGEKYRDAWQHGIQKKQSSGGKGSPRLEDLVD 320 (371)
Q Consensus 242 g~r~~~~~~~~~~r~~~~~~~~~~-~~~~g~~~~~~~~~e~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~ 320 (371)
|++.+.+.+ .+++.|++...-.- |++||..| |...++...|..|+..|+..||...|.-...- ++++..++.+..
T Consensus 20 G~rfr~q~~-~~~~~Df~~~~~rl~IevDG~~w--H~~~~~~~rD~~r~~~L~~~Gw~Vlr~~~~~v-~~~~~v~~~I~~ 95 (105)
T 3r3p_A 20 DIVYFTHHV-VEGWNVAFYLGKKLAIEVNGVYW--ASKQKNVNKDKRKLSELHSKGYRVLTIEDDEL-NDIDKVKQQIQK 95 (105)
T ss_dssp TCCCEEEEE-ETTEEEEEEEETTEEEEEECSCC--TTCCCCHHHHHHHHHHHHHTTCEEEEEEGGGG-GGHHHHHHHHHH
T ss_pred CCccEecCC-CCCeEEEEECCCCEEEEecCccc--CCCchHHHHHHHHHHHHHHCCCEEEEEeHHHh-CCHHHHHHHHHH
Confidence 444444555 66777777664333 99999998 66678999999999999999999999998888 877777777655
Q ss_pred hh
Q 047960 321 AF 322 (371)
Q Consensus 321 ~~ 322 (371)
.+
T Consensus 96 ~l 97 (105)
T 3r3p_A 96 FW 97 (105)
T ss_dssp HH
T ss_pred HH
Confidence 55
No 14
>3hrl_A Endonuclease-like protein; structural genomics, PS protein structure initiative, midwest center for structural genomics, MCSG; 1.95A {Neisseria gonorrhoeae fa 1090}
Probab=95.14 E-value=0.00041 Score=55.75 Aligned_cols=77 Identities=8% Similarity=-0.082 Sum_probs=53.8
Q ss_pred CCCccccCcccCCcccccccCCCCCCCCCCCCCCCc--cccCCCCCCCCCCcccccccccccccccccccccccccccCC
Q 047960 230 KIPHNARGLRSAGQRHRSFDMNMESRSGTPSEDDEK--VSRNGNYRPFKPPLENSLDDFDQSGEKYRDAWQHGIQKKQSS 307 (371)
Q Consensus 230 ~g~~v~~~v~~~g~r~~~~~~~~~~r~~~~~~~~~~--~~~~g~~~~~~~~~e~~~~~~~~~~~~~r~~~~~~~~~~~~~ 307 (371)
.|+...+|+.+++|+ .|+.... .+ |||||. + |.+.+ ..|..|+..|++.||...|.-...-
T Consensus 21 ~G~~fr~q~~i~~~~-----------~Df~~~~-~rl~IE~DG~-~--H~~~~--~~D~~R~~~L~~~Gw~VlR~~~~dv 83 (104)
T 3hrl_A 21 NGYKFRRQQPMGNYI-----------VDFMCVT-PKLIVEADGG-Q--HAEQA--VYDHARTVYLNSLGFTVLRFWNHEI 83 (104)
T ss_dssp TTCCEEEEEEETTEE-----------EEEEETT-TTEEEEEEC------------CCCHHHHHHHHHTTCEEEEEEHHHH
T ss_pred CCcEEEeecccCCcE-----------EeEEecC-CCEEEEEECc-c--cCChH--HHHHHHHHHHHhCcCEEEEEEHHHH
Confidence 566677777766664 4444332 34 999995 4 34333 4599999999999999999998888
Q ss_pred CCCCCCchHHHHHhhh
Q 047960 308 GGKGSPRLEDLVDAFW 323 (371)
Q Consensus 308 ~~~~~~~~~~~~~~~~ 323 (371)
..+|+..++.+..+|.
T Consensus 84 ~~~~~~v~~~I~~~l~ 99 (104)
T 3hrl_A 84 LQQTNDVLAEILRVLQ 99 (104)
T ss_dssp HHCHHHHHHHHHHHHH
T ss_pred hhCHHHHHHHHHHHHh
Confidence 8888888888877764
No 15
>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex (helicase/DNA), DNA unwinding, hydrolase/DNA complex; HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19
Probab=94.83 E-value=0.011 Score=62.00 Aligned_cols=59 Identities=19% Similarity=0.103 Sum_probs=42.8
Q ss_pred CCCeEEccccCCCCccccEEEEEccccCCCC--c-----cCCCCCCchhhhhHhhcccEEEEeecc
Q 047960 124 GKDLYINTVDAFQGQERDVIIMSCVRASNHG--V-----GFVADIRRMNVALTRARRALWVMGNAG 182 (371)
Q Consensus 124 ~~~i~V~TVd~fQG~ErDVIIiS~vrs~~~~--~-----gfl~d~rRLNVAlSRAK~~liVvGn~~ 182 (371)
...|.|.|+|...|.|+|+||+.-.....-+ . ......|.+.||+||||+.|++.+...
T Consensus 549 ~d~V~l~TiH~sKGLEf~~Vfl~g~~eg~~P~~~~~~~~~~~EErRL~YVA~TRAk~~L~ls~~~~ 614 (673)
T 1uaa_A 549 LDQVQLMTLHASKGLEFPYVYMVGMEEGFLPHQSSIDEDNIDEERRLAYVGITRAQKELTFTLCKE 614 (673)
T ss_dssp CCSEEEEESTTTSSCCEEEEEECCCBSSTTTTHHHHTTTCCHHHHHHHHHHHHTEEEEEEEEECSS
T ss_pred CCeeEEEeeeecccccCCEEEEecCcCCCCCCcccCcchhHHHHHHHHHHHHHhhhheEEEEEecc
Confidence 3579999999999999999999754332100 0 011234678999999999999987644
No 16
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_A*
Probab=93.03 E-value=0.052 Score=60.99 Aligned_cols=59 Identities=24% Similarity=0.460 Sum_probs=42.6
Q ss_pred CCeEEccccCCCCccccEEEEEccccCCC------------Ccc----CCC--------------------------CCC
Q 047960 125 KDLYINTVDAFQGQERDVIIMSCVRASNH------------GVG----FVA--------------------------DIR 162 (371)
Q Consensus 125 ~~i~V~TVd~fQG~ErDVIIiS~vrs~~~------------~~g----fl~--------------------------d~r 162 (371)
..|.|.|+|..-|.|+++||+.-...... ..| ++. ..|
T Consensus 786 d~V~ImTIH~SKGLEfpvVfl~gl~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~EE~R 865 (1232)
T 3u4q_A 786 DVVRLMTIHSSKGLEFPVVFVAGLGRNFNMMDLNKSYLLDKELGFGTKYIHPQLRISYPTLPLIAMKKKMRRELLSEELR 865 (1232)
T ss_dssp CCEEEEEGGGTTTCCEEEEEEECTTSBCCCTTSCSSEEEETTTEEEECEEETTTTEEECCHHHHHHHHHHHHHHHHHHHH
T ss_pred CcEEEecchhccCCCCCEEEEccccccCCCcCCCCCeeeccccCcCcceecchhccccCcHHHHHHHHHHHHHHHHHHHH
Confidence 46999999999999999999976532110 001 000 124
Q ss_pred chhhhhHhhcccEEEEeeccc
Q 047960 163 RMNVALTRARRALWVMGNAGA 183 (371)
Q Consensus 163 RLNVAlSRAK~~liVvGn~~~ 183 (371)
.|.||+||||+.|++.|....
T Consensus 866 LLYVAlTRAk~~L~l~~~~~~ 886 (1232)
T 3u4q_A 866 VLYVALTRAKEKLFLIGSCKD 886 (1232)
T ss_dssp HHHHHHHTEEEEEEEEEECSC
T ss_pred HHHHHHHhhccEEEEEEEeCc
Confidence 577999999999999998754
No 17
>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B*
Probab=91.85 E-value=0.045 Score=61.23 Aligned_cols=55 Identities=20% Similarity=0.186 Sum_probs=39.3
Q ss_pred CeEEccccCCCCccccEEEEEccccCCC-Ccc-C---------------------------CCCCCchhhhhHhhcccEE
Q 047960 126 DLYINTVDAFQGQERDVIIMSCVRASNH-GVG-F---------------------------VADIRRMNVALTRARRALW 176 (371)
Q Consensus 126 ~i~V~TVd~fQG~ErDVIIiS~vrs~~~-~~g-f---------------------------l~d~rRLNVAlSRAK~~li 176 (371)
.|.|.|||..-|.|+++||+..+..... ..+ + ..+.|.|.||+||||+.|+
T Consensus 735 ~V~ImTIHkSKGLEfpvVfl~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~e~~~Ee~RLlYVAlTRAk~~L~ 814 (1180)
T 1w36_B 735 LVQIVTIHKSKGLEYPLVWLPFITNFRVQEQAFYHDRHSFEAVLDLNAAPESVDLAEAERLAEDLRLLYVALTRSVWHCS 814 (1180)
T ss_dssp SEEEEETTTTSSCCEEEEEETTTTCCCCCCSCEEECTTTCCEEEESSCCHHHHHHHHHHHHHHHHHHHHHHHTTEEEEEE
T ss_pred eEEEEEEeccCCCcCCEEEEeccccCCCCCCCeeecCCCcceeecCCCcHHHHHHHHHHHHHHHhhHHhhhhcchhhheE
Confidence 5899999999999999999954322110 000 0 0123679999999999999
Q ss_pred EEee
Q 047960 177 VMGN 180 (371)
Q Consensus 177 VvGn 180 (371)
+...
T Consensus 815 l~~~ 818 (1180)
T 1w36_B 815 LGVA 818 (1180)
T ss_dssp EEEC
T ss_pred EEee
Confidence 9743
No 18
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_A*
Probab=85.41 E-value=0.97 Score=50.71 Aligned_cols=114 Identities=15% Similarity=-0.001 Sum_probs=59.6
Q ss_pred CccccccCCchhhhhcchhhccCCcccc-----CccccCCCCcccCCCCCCCcEEEEEcCCCeeeecCCCC--CccCHHH
Q 047960 1 MLLSVQYRMHPHIRDFPSRHFYQGRLTD-----SESVINLPDEVYYKDPVLRPYVFFDVIHGRESHRGGSV--SYQNVDE 73 (371)
Q Consensus 1 i~L~~qYRmhp~I~~f~n~~FY~g~L~~-----~~s~~~~~~~~~~~~~~~~p~~f~~v~~g~~~~~~~~~--S~~N~~E 73 (371)
+.|..+||+.++|.++.|..|-...-.. ......+.....++.....++.++.+............ -.....|
T Consensus 472 i~L~~NyRS~~~Il~~~n~lf~~~~~~~~~~i~y~~~~~l~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~E 551 (1232)
T 3u4q_A 472 IDLNKNFRSRADILDSTNFLFKQLMGGKIGEVDYDEQAELKLGAAYPDNDETETELLLIDNAEDTDASEEAEELETVQFE 551 (1232)
T ss_dssp EEECEESSSCHHHHHHHHHHHHTTSCHHHHSSCCCTTTSCEECCCCCCCSSCSEEEEEEC-------------CHHHHHH
T ss_pred eECCCCCCCChHHHHHHHHHHhhccccccccCCCchhhhcccCccCccCCCCCeEEEEecCCccccccccccccccHHHH
Confidence 3589999999999999999886541100 00000000000111111123333322211000000000 0123467
Q ss_pred HHHHHHHHHHHHHHHHhc------------CCCCceEEEEcccHHHHHHHHHHHHh
Q 047960 74 AKFGVCLYEHLQKTLKSM------------GLGKVTVGIITPYKLQLKCLQHEFRN 117 (371)
Q Consensus 74 A~~Vv~lv~~l~~~l~~~------------~~~~~sIgVITpy~aQ~~~I~~~L~~ 117 (371)
|+.|+..+..+.. .. +++..+|+|++.-+.|...|.+.|.+
T Consensus 552 a~~iA~~I~~l~~---~~~~v~d~~~~~~r~~~~~DIAIL~R~~~~~~~i~~~L~~ 604 (1232)
T 3u4q_A 552 AKAIAKEIRKLIS---SPFKVYDGKKKTHRNIQYRDIVILLRSMPWAPQIMEELRA 604 (1232)
T ss_dssp HHHHHHHHHHHHT---SCCCBC---CCCCBCCCSTTEEEEESSSSSHHHHHHHHHH
T ss_pred HHHHHHHHHHHHh---cCCceecccccccCCCCcCCEEEEEECchhHHHHHHHHhH
Confidence 8878777666543 21 35678999999998899999888865
No 19
>1cw0_A Protein (DNA mismatch endonuclease); protein-DNA complex, intercalation, zinc, hydrolase/DNA; HET: DNA; 2.30A {Escherichia coli} SCOP: c.52.1.15
Probab=83.21 E-value=0.13 Score=44.16 Aligned_cols=85 Identities=14% Similarity=0.102 Sum_probs=58.9
Q ss_pred ccCCcccccccCCCCCCCCCCCCCCCc-cccCCCCCCCCC-----C------------cccccccccccccccccccccc
Q 047960 239 RSAGQRHRSFDMNMESRSGTPSEDDEK-VSRNGNYRPFKP-----P------------LENSLDDFDQSGEKYRDAWQHG 300 (371)
Q Consensus 239 ~~~g~r~~~~~~~~~~r~~~~~~~~~~-~~~~g~~~~~~~-----~------------~e~~~~~~~~~~~~~r~~~~~~ 300 (371)
...||+.+-+.+..+++.|.+-..-.- |++||.+|--|+ . ..+...|-.++..|+..||...
T Consensus 32 ~~~G~rfR~q~~~lpg~pDfv~~~~rlvIfVdGcfWHgH~c~~~~~p~tn~~~W~~Ki~~n~~rD~~r~~~L~~~Gw~Vl 111 (155)
T 1cw0_A 32 TGQGLAFRVQDASLPGRPDFVVDEYRCVIFTHGCFWHHHHCYLFKVPATRTEFWLEKIGKNVERDRRDISRLQELGWRVL 111 (155)
T ss_dssp HHTTCCCEECCTTSTTCCSEEEGGGTEEEEEECTTTTTCSSTTCCCCSSSHHHHHHHHHHHHHHHHHHHHHHHHTTCEEE
T ss_pred HHCCCeEEEeCCCCCCcccEEcccCCEEEEEeChhhccCCCccCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHCCCEEE
Confidence 335777777778888888888764443 999999972111 1 1456778889999999999999
Q ss_pred cccccCCCCCC----CCchHHHHHhhh
Q 047960 301 IQKKQSSGGKG----SPRLEDLVDAFW 323 (371)
Q Consensus 301 ~~~~~~~~~~~----~~~~~~~~~~~~ 323 (371)
+.--..-..+. +..++.+.+.+.
T Consensus 112 rfWe~ev~~~~~~~~~~v~~~I~~~l~ 138 (155)
T 1cw0_A 112 IVWECALRGREKLTDEALTERLEEWIC 138 (155)
T ss_dssp EEEHHHHSSTTCCCHHHHHHHHHHHHH
T ss_pred EEehHHhhhccccCHHHHHHHHHHHHH
Confidence 98777666655 334444444444
No 20
>1vsr_A Protein (VSR endonuclease); DNA repair, mismatch recognition, hydrolase; 1.80A {Escherichia coli} SCOP: c.52.1.15 PDB: 1odg_A*
Probab=82.65 E-value=0.098 Score=43.89 Aligned_cols=86 Identities=14% Similarity=0.078 Sum_probs=59.7
Q ss_pred cCCcccccccCCCCCCCCCCCCCCCc-cccCCCCCCCCC-----C------------ccccccccccccccccccccccc
Q 047960 240 SAGQRHRSFDMNMESRSGTPSEDDEK-VSRNGNYRPFKP-----P------------LENSLDDFDQSGEKYRDAWQHGI 301 (371)
Q Consensus 240 ~~g~r~~~~~~~~~~r~~~~~~~~~~-~~~~g~~~~~~~-----~------------~e~~~~~~~~~~~~~r~~~~~~~ 301 (371)
..||+.+-+.+..+++.|.+-..-.- |+.||.+|--++ . ..+..+|-.++..|+..||...+
T Consensus 14 ~~G~rfR~q~~~lpg~pD~v~~~~rlvIfvdGcfWHgH~c~~~~~p~tn~~~W~~Ki~~n~~rD~~~~~~L~~~Gw~Vlr 93 (136)
T 1vsr_A 14 GQGLAFRVQDASLPGRPDFVVDEYRCVIFTHGCFWHHHHCYLFKVPATRTEFWLEKIGKNVERDRRDISRLQELGWRVLI 93 (136)
T ss_dssp HTTCCCEESCTTSTTCCSEEEGGGTEEEEEECTTTTTCSSTTCCCCSSSHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEE
T ss_pred HCCCEEEEecCCCCCcccEEeccCCEEEEEeCccccCCCCccCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEE
Confidence 35777777778888988888764443 999999872111 1 15567888899999999999999
Q ss_pred ccccCCCCCC----CCchHHHHHhhhhc
Q 047960 302 QKKQSSGGKG----SPRLEDLVDAFWWV 325 (371)
Q Consensus 302 ~~~~~~~~~~----~~~~~~~~~~~~~~ 325 (371)
.--..-..+. +..++.+.+.+...
T Consensus 94 fWe~ev~~~~~~~~~~v~~~I~~~l~~~ 121 (136)
T 1vsr_A 94 VWECALRGREKLTDEALTERLEEWICGE 121 (136)
T ss_dssp EEHHHHSSTTCCCHHHHHHHHHHHHHTT
T ss_pred EehHHhhhhccccHHHHHHHHHHHHHhC
Confidence 8776665554 44445554554433
No 21
>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B*
Probab=81.79 E-value=1.9 Score=48.06 Aligned_cols=112 Identities=8% Similarity=0.060 Sum_probs=60.4
Q ss_pred CccccccCCchhhhhcchhhccCCccccC-ccccCCCC-------cccC--CCCCCCcEEEEEcCCCeeeecCCCCCccC
Q 047960 1 MLLSVQYRMHPHIRDFPSRHFYQGRLTDS-ESVINLPD-------EVYY--KDPVLRPYVFFDVIHGRESHRGGSVSYQN 70 (371)
Q Consensus 1 i~L~~qYRmhp~I~~f~n~~FY~g~L~~~-~s~~~~~~-------~~~~--~~~~~~p~~f~~v~~g~~~~~~~~~S~~N 70 (371)
+.|.++|||+|+|.++.|..|-...-... ..+.-.+. ...+ ......++.++..... ........
T Consensus 441 ~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~-----~~~~~~~~ 515 (1180)
T 1w36_B 441 YTLDTNWRSAPGMVNSVNKLFSQTDDAFMFREIPFIPVKSAGKNQALRFVFKGETQPAMKMWLMEGE-----SCGVGDYQ 515 (1180)
T ss_dssp EECCEETTSCHHHHHHHHHHHHSSSSTTSSTTSCCCCCEECGGGTTEEEEETTEEECSEEEEECCSS-----CCCTTHHH
T ss_pred eeCCCCcCCcHHHHHHHHHHHhccccccccCCCCcccccccccccccccccCCCCCCCeeEeecCCC-----ccCcchHH
Confidence 35889999999999999998754321000 00000000 0000 0000012333222110 00000112
Q ss_pred HHHHHHHHHHHHHHHHHHH-----------hcCCCCceEEEEcccHHHHHHHHHHHHh
Q 047960 71 VDEAKFGVCLYEHLQKTLK-----------SMGLGKVTVGIITPYKLQLKCLQHEFRN 117 (371)
Q Consensus 71 ~~EA~~Vv~lv~~l~~~l~-----------~~~~~~~sIgVITpy~aQ~~~I~~~L~~ 117 (371)
..||+.|+..+..++.... ..+++..+|+|++..+.|...|.+.|.+
T Consensus 516 ~~ea~~iA~~I~~l~~~~~~~~~~~~~~~~~~~~~~~DIAIL~R~~~~~~~i~~~L~~ 573 (1180)
T 1w36_B 516 STMAQVCAAQIRDWLQAGQRGEALLMNGDDARPVRASDISVLVRSRQEAAQVRDALTL 573 (1180)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTCEEEEETTEEEECCGGGEEEEESSHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHhcccccceecCCcccCCCCcccEEEEeecchHHHHHHHHHHH
Confidence 4688888877766654211 0356788999999999999988888864
No 22
>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_B*
Probab=80.00 E-value=3.8 Score=45.47 Aligned_cols=87 Identities=9% Similarity=0.008 Sum_probs=55.9
Q ss_pred ccccccCCchhhhhcchhhccCCccccCccccCCCCcccCCCCCCCcEEEEEcCCCeeeecCCCCCccCHHHHHHHHHHH
Q 047960 2 LLSVQYRMHPHIRDFPSRHFYQGRLTDSESVINLPDEVYYKDPVLRPYVFFDVIHGRESHRGGSVSYQNVDEAKFGVCLY 81 (371)
Q Consensus 2 ~L~~qYRmhp~I~~f~n~~FY~g~L~~~~s~~~~~~~~~~~~~~~~p~~f~~v~~g~~~~~~~~~S~~N~~EA~~Vv~lv 81 (371)
.|..+||+.+.|.++.++.+....- . .+... ..++.++... .-..||+.|+..+
T Consensus 278 ~L~~nyRs~~~il~~i~~~~~~~~~-----------~-~~~~~-~~~i~i~~~~-------------~~~~Ea~~ia~~I 331 (1166)
T 3u4q_B 278 LSGTERHTKTPELAHLEAQYEARPA-----------I-PYAEK-QEALTVMQAA-------------NRRAELEGIAREI 331 (1166)
T ss_dssp ECSCSTTTTCHHHHHHHHSSSCSSC-----------C-CCCSC-CSSEEEEEES-------------SHHHHHHHHHHHH
T ss_pred ecCCCCCCCCHHHHHHHHhHhhcCC-----------C-ccCCC-CCCeEEEEcC-------------ChHHHHHHHHHHH
Confidence 5889999999998888765432110 0 01111 1233343322 1347888888776
Q ss_pred HHHHHHHHhcCCCCceEEEEcccH-HHHHHHHHHHHh
Q 047960 82 EHLQKTLKSMGLGKVTVGIITPYK-LQLKCLQHEFRN 117 (371)
Q Consensus 82 ~~l~~~l~~~~~~~~sIgVITpy~-aQ~~~I~~~L~~ 117 (371)
..+. ...|++..+|+|+++.. .|...|...|.+
T Consensus 332 ~~l~---~~~g~~~~diAVL~R~~~~~~~~i~~~L~~ 365 (1166)
T 3u4q_B 332 HALV---REKGYRYKDVAILARQPEDYKDMVKEVFAD 365 (1166)
T ss_dssp HHHH---HTSCCCGGGEEEEESCGGGTHHHHHHHHHH
T ss_pred HHHH---HhcCCChhheEEEeCChHHHHHHHHHHHHH
Confidence 6653 33578889999999997 588888888865
No 23
>1w36_C RECC, exodeoxyribonuclease V gamma chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.25 PDB: 3k70_C*
Probab=72.26 E-value=7.5 Score=43.09 Aligned_cols=76 Identities=17% Similarity=0.069 Sum_probs=52.3
Q ss_pred CCCeEEccccCCCCccccEEEEEccccCC-C----CccC--------CCC-------CCchhhhhHhhcccEEEEeeccc
Q 047960 124 GKDLYINTVDAFQGQERDVIIMSCVRASN-H----GVGF--------VAD-------IRRMNVALTRARRALWVMGNAGA 183 (371)
Q Consensus 124 ~~~i~V~TVd~fQG~ErDVIIiS~vrs~~-~----~~gf--------l~d-------~rRLNVAlSRAK~~liVvGn~~~ 183 (371)
...|.|.|++..-|.|+|+||+--..... + .-+| ..+ .+.+.||+||||+.|++......
T Consensus 656 ~~~V~l~Tlh~aKgLef~vVfllGlnEG~fP~~~~~~~~dll~~~l~~~dr~~~eEERrLfYvAltrA~~~L~LSy~~~~ 735 (1122)
T 1w36_C 656 AGPVNICTLMPMRSIPFKVVCLLGMNDGVYPRQLAPLGFDLMSQKPKRGDRSRRDDDRYLFLEALISAQQKLYISYIGRS 735 (1122)
T ss_dssp SSSCEEECCCTTCCCCEEEEEEECCBTTTSSCCCCCCSSCHHHHSCCTTCCCHHHHHHHHHHHHHHHEEEEEEEEEECBC
T ss_pred CCeEEEeccccccCCCcCEEEEeCCCcccCCCCCCCCcHHHhhcccCCCchhhhHHHHHHHHHHHHhhcCeEEEEEeCCc
Confidence 45899999999999999999986654331 0 1123 112 23388999999999999866432
Q ss_pred ------ccCCchHHHHHHHHHh
Q 047960 184 ------LTQSDDWAALIADSKA 199 (371)
Q Consensus 184 ------L~~~~~w~~ll~~a~~ 199 (371)
...+.....+..++..
T Consensus 736 ~~~g~~~~PSrfL~eL~~~l~~ 757 (1122)
T 1w36_C 736 IQDNSERFPSVLVQELIDYIGQ 757 (1122)
T ss_dssp SSSCCBCCBCHHHHHHHHHHHT
T ss_pred CCCCCcCCCCHHHHHHHHHHHH
Confidence 2334567777777654
No 24
>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_B*
Probab=70.27 E-value=19 Score=39.91 Aligned_cols=73 Identities=12% Similarity=0.053 Sum_probs=48.8
Q ss_pred CCCeEEccccCCCCccccEEEEEccccCC-----CCccCCCC------------------------CCchhhhhHhhccc
Q 047960 124 GKDLYINTVDAFQGQERDVIIMSCVRASN-----HGVGFVAD------------------------IRRMNVALTRARRA 174 (371)
Q Consensus 124 ~~~i~V~TVd~fQG~ErDVIIiS~vrs~~-----~~~gfl~d------------------------~rRLNVAlSRAK~~ 174 (371)
...|.|.|++...|.|+++||+.-+.... ..-+|+.+ .+.+.||+|||++.
T Consensus 585 ~d~V~i~t~~~argl~f~~V~l~G~~eg~~P~~~~~~~~l~~~~R~~l~~~g~~l~~~~~~~~~eer~l~y~altrA~~~ 664 (1166)
T 3u4q_B 585 LDQVFVGNMDLSRMYGTSCTFVLGANDGVLPARPDENGVLSDDDREWLKTIGVELSSGGRERLLDEHFLIYMAFSSPSDR 664 (1166)
T ss_dssp SSCEEEEESSSCCCSSCSEEEEECCBTTTTTTCCCCCSSSCHHHHHHHHHHTCCCCCCSSHHHHHHHHHHHHHHTSCSSE
T ss_pred CCEEEEecCcccccCCCCEEEEeCCCcCCCCCCCCCCCCCCHHHHHHHHhCCCcCCCchHHHHHHhHHHHHHHHhcccCe
Confidence 45799999999999999999997664331 11233221 13378999999999
Q ss_pred EEEEeecc-----cccCCchHHHHHHH
Q 047960 175 LWVMGNAG-----ALTQSDDWAALIAD 196 (371)
Q Consensus 175 liVvGn~~-----~L~~~~~w~~ll~~ 196 (371)
|++.-... .+..+..+..+...
T Consensus 665 L~lsy~~~~~~~~~~~pS~~l~el~~~ 691 (1166)
T 3u4q_B 665 LYVSYPIADAEGKTLLPSMIVKRLEEL 691 (1166)
T ss_dssp EEEEEESSCSSSCCCCBCHHHHHHHHH
T ss_pred EEEEEeccCCCCCccCCCHHHHHHHHH
Confidence 99875432 23344555555544
No 25
>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*
Probab=50.48 E-value=17 Score=37.03 Aligned_cols=47 Identities=6% Similarity=0.169 Sum_probs=37.9
Q ss_pred HHhcCCCCceEEEEcccHHHHHHHHHHHHhhhccCCCCCeEEccccCC
Q 047960 88 LKSMGLGKVTVGIITPYKLQLKCLQHEFRNVLNSEEGKDLYINTVDAF 135 (371)
Q Consensus 88 l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~~~~~~~~~~i~V~TVd~f 135 (371)
+...+.++..|.++||.+.-+..+++.|.+.+... ...+.|.|.++|
T Consensus 47 ~~~~~~~~~~iL~ltft~~aa~e~~~rl~~~~~~~-~~~~~v~Tfhs~ 93 (647)
T 3lfu_A 47 MSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTS-QGGMWVGTFHGL 93 (647)
T ss_dssp HHTSCCCGGGEEEEESSHHHHHHHHHHHHHHHCSC-CTTCEEEEHHHH
T ss_pred HHhCCCChhhEEEEeccHHHHHHHHHHHHHHhccc-cCCcEEEcHHHH
Confidence 34446788999999999999999999988776532 367899999987
No 26
>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP- binding, DNA-binding; 2.50A {Geobacillus stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C* 2pjr_B*
Probab=43.01 E-value=22 Score=37.27 Aligned_cols=47 Identities=13% Similarity=0.230 Sum_probs=36.1
Q ss_pred HHhcCCCCceEEEEcccHHHHHHHHHHHHhhhccCCCCCeEEccccCC
Q 047960 88 LKSMGLGKVTVGIITPYKLQLKCLQHEFRNVLNSEEGKDLYINTVDAF 135 (371)
Q Consensus 88 l~~~~~~~~sIgVITpy~aQ~~~I~~~L~~~~~~~~~~~i~V~TVd~f 135 (371)
+...++++.+|.+||+-++-+..+++.|...+... ...+.|.|.|+|
T Consensus 49 l~~~~~~p~~IL~vTFTnkAA~Em~~Rl~~~l~~~-~~~~~v~Tfhs~ 95 (724)
T 1pjr_A 49 MAEKHVAPWNILAITFTNKAAREMRERVQSLLGGA-AEDVWISTFHSM 95 (724)
T ss_dssp HHTTCCCGGGEEEEESSHHHHHHHHHHHHHHHGGG-GTTSEEEEHHHH
T ss_pred HHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhccc-ccCcEEeeHHHH
Confidence 33447889999999999988888888887765432 246789998876
No 27
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}
Probab=42.71 E-value=17 Score=36.20 Aligned_cols=81 Identities=11% Similarity=0.085 Sum_probs=52.2
Q ss_pred ceEEEEcccHHHHHHHHHHHHhhhccCCCCCeEEccccCC--CCc-----cccEEEEEccccCCCCccCCCCCCchhhhh
Q 047960 96 VTVGIITPYKLQLKCLQHEFRNVLNSEEGKDLYINTVDAF--QGQ-----ERDVIIMSCVRASNHGVGFVADIRRMNVAL 168 (371)
Q Consensus 96 ~sIgVITpy~aQ~~~I~~~L~~~~~~~~~~~i~V~TVd~f--QG~-----ErDVIIiS~vrs~~~~~gfl~d~rRLNVAl 168 (371)
..+.|+||-++-+..|++.+.+. .........|.|+|+| ++. +.|++||.=. + +-+..-+...+
T Consensus 185 ~~~lVlTpT~~aa~~l~~kl~~~-~~~~~~~~~V~T~dsfL~~~~~~~~~~~d~liiDE~-------s-m~~~~~l~~l~ 255 (446)
T 3vkw_A 185 EEDLILVPGRQAAEMIRRRANAS-GIIVATKDNVRTVDSFLMNYGKGARCQFKRLFIDEG-------L-MLHTGCVNFLV 255 (446)
T ss_dssp TTCEEEESCHHHHHHHHHHHTTT-SCCCCCTTTEEEHHHHHHTTTSSCCCCCSEEEEETG-------G-GSCHHHHHHHH
T ss_pred CCeEEEeCCHHHHHHHHHHhhhc-CccccccceEEEeHHhhcCCCCCCCCcCCEEEEeCc-------c-cCCHHHHHHHH
Confidence 46789999998888888777432 1112345689999986 332 3799999732 2 23333443333
Q ss_pred Hhhc-ccEEEEeeccccc
Q 047960 169 TRAR-RALWVMGNAGALT 185 (371)
Q Consensus 169 SRAK-~~liVvGn~~~L~ 185 (371)
..++ ..++++|+...+.
T Consensus 256 ~~~~~~~vilvGD~~Qlp 273 (446)
T 3vkw_A 256 EMSLCDIAYVYGDTQQIP 273 (446)
T ss_dssp HHTTCSEEEEEECTTSCC
T ss_pred HhCCCCEEEEecCccccc
Confidence 3322 7899999999864
No 28
>1tvm_A PTS system, galactitol-specific IIB component; phosphotransferase system (PTS), P-loop; NMR {Escherichia coli}
Probab=26.59 E-value=98 Score=24.13 Aligned_cols=54 Identities=11% Similarity=0.071 Sum_probs=32.5
Q ss_pred CCceEEEEccc-HHHHHHHHHHHHhhhccCCCC-CeEEccccCCCC--ccccEEEEEc
Q 047960 94 GKVTVGIITPY-KLQLKCLQHEFRNVLNSEEGK-DLYINTVDAFQG--QERDVIIMSC 147 (371)
Q Consensus 94 ~~~sIgVITpy-~aQ~~~I~~~L~~~~~~~~~~-~i~V~TVd~fQG--~ErDVIIiS~ 147 (371)
....|.++|.. -+-..++...|++.++..+.. .+....+..+.. .+.|+||.+.
T Consensus 20 ~~kkIlvvC~sG~gTS~ll~~kl~~~~~~~gi~~~V~~~~~~~~~~~~~~~DlIist~ 77 (113)
T 1tvm_A 20 SKRKIIVACGGAVATSTMAAEEIKELCQSHNIPVELIQCRVNEIETYMDGVHLICTTA 77 (113)
T ss_dssp SSEEEEEESCSCSSHHHHHHHHHHHHHHHTTCCEEEEEECTTTTTTSTTSCSEEEESS
T ss_pred cccEEEEECCCCHHHHHHHHHHHHHHHHHcCCeEEEEEecHHHHhhccCCCCEEEECC
Confidence 45689999997 444455667777766654443 233444445544 4689777653
No 29
>2nxv_A ATP synthase subunits region ORF 6; majastridin, ATPase operon, glycosyl transferase, rossmann F sulphur SAD, transferase; 1.10A {Rhodobacter blasticus} PDB: 2qgi_A*
Probab=25.93 E-value=2.5e+02 Score=24.33 Aligned_cols=85 Identities=6% Similarity=0.007 Sum_probs=52.4
Q ss_pred eEEEEcccHHHHHHHHHHHHhhhccCCCCCeEEccccCCCCccccEEEEEccccCCCCccCCCCCCchhhhhHhhcccEE
Q 047960 97 TVGIITPYKLQLKCLQHEFRNVLNSEEGKDLYINTVDAFQGQERDVIIMSCVRASNHGVGFVADIRRMNVALTRARRALW 176 (371)
Q Consensus 97 sIgVITpy~aQ~~~I~~~L~~~~~~~~~~~i~V~TVd~fQG~ErDVIIiS~vrs~~~~~gfl~d~rRLNVAlSRAK~~li 176 (371)
.|.||+.|+. .+.|.+.|+..... +. -|.. .+|||+.-..+.. .| -..-.|.++..|+--.+
T Consensus 17 ~iSII~~yN~-~~~l~~~l~sl~~s----------l~-~q~~-~EiIVVDn~s~d~--~g---~a~a~N~Gi~~A~g~yl 78 (249)
T 2nxv_A 17 MFSVCSLVRD-QAKYDRLLESFERF----------GF-TPDK-AEFLAADNREGNQ--FH---GFSWHKQMLPRCKGRYV 78 (249)
T ss_dssp SEEEEEEESC-HHHHHHHHHHHHHT----------TC-CTTT-EEEEEEECTTSCS--CC---TTTHHHHHGGGCCSSEE
T ss_pred eEEEEEeeCC-HHHHHHHHHHHHHh----------cc-CCCc-EEEEEEECCCCCc--cc---HHHHHHHHHHhcCCCEE
Confidence 4667766877 45677666532211 00 0211 5666665221110 12 14568999999999999
Q ss_pred EEeecccccCCchHHHHHHHHHh
Q 047960 177 VMGNAGALTQSDDWAALIADSKA 199 (371)
Q Consensus 177 VvGn~~~L~~~~~w~~ll~~a~~ 199 (371)
+|-|.+..-....+..+++.+++
T Consensus 79 ~fln~D~~~~~~~l~~l~~~~~~ 101 (249)
T 2nxv_A 79 IFCHEDVELVDRGYDDLVAAIEA 101 (249)
T ss_dssp EEEETTEECSSCCHHHHHHHHHH
T ss_pred EEECCCcccCccHHHHHHHHHHh
Confidence 99999986655667788887765
Done!