Query gi|254780134|ref|YP_003064547.1| phage-related integrase/recombinase [Candidatus Liberibacter asiaticus str. psy62] Match_columns 348 No_of_seqs 161 out of 6694 Neff 9.6 Searched_HMMs 33803 Date Mon May 23 10:09:46 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780134.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1z1b_A Integrase; protein-DNA 99.9 3.6E-21 1.1E-25 155.7 13.9 163 163-325 3-179 (190) 2 >1a0p_A Site-specific recombin 99.8 2.8E-21 8.4E-26 156.4 8.6 164 164-327 1-182 (190) 3 >1xo0_A Recombinase CRE; CRE r 99.8 5.6E-22 1.7E-26 161.0 2.8 154 172-325 2-194 (196) 4 >1z19_A Integrase; protein-DNA 99.8 6.6E-20 1.9E-24 147.5 12.1 165 162-326 2-181 (190) 5 >2a3v_A Site-specific recombin 99.8 2.1E-20 6.1E-25 150.8 5.3 113 163-327 1-115 (128) 6 >1ae9_A Lambda integrase; DNA 99.8 3.1E-18 9E-23 136.7 11.4 154 172-325 2-169 (179) 7 >1aih_A HP1 integrase; DNA int 99.7 2.7E-17 8.1E-22 130.5 7.8 105 172-326 5-115 (133) 8 >2kiw_A INT protein; alpha, st 99.6 4.2E-15 1.3E-19 116.3 10.9 109 70-179 1-111 (111) 9 >2kob_A Uncharacterized protei 99.6 3.5E-15 1E-19 116.8 10.2 103 68-170 1-103 (108) 10 >2oxo_A Integrase; DNA-binding 99.6 1.7E-14 4.9E-19 112.4 9.9 100 69-168 1-102 (103) 11 >2khq_A Integrase; all-alpha, 99.6 2.4E-14 7.1E-19 111.3 10.7 103 69-171 2-106 (110) 12 >2kd1_A DNA integration/recomb 99.5 5E-14 1.5E-18 109.3 9.8 111 66-177 3-117 (118) 13 >2khv_A Phage integrase; solut 99.5 2.8E-14 8.3E-19 110.9 8.2 102 69-170 1-104 (106) 14 >2key_A Putative phage integra 99.5 6.2E-14 1.8E-18 108.7 8.6 104 65-169 4-111 (112) 15 >2kkv_A Integrase; protein str 99.5 4.7E-14 1.4E-18 109.5 5.9 113 65-179 3-120 (121) 16 >2kj9_A Integrase; DNA_BRE_C s 99.5 1.5E-13 4.4E-18 106.2 8.2 106 63-170 5-113 (118) 17 >2kj8_A Putative prophage CPS- 99.5 2.5E-13 7.5E-18 104.7 8.7 110 67-177 3-117 (118) 18 >1z19_A Integrase; protein-DNA 99.5 6.1E-13 1.8E-17 102.2 10.5 91 69-159 1-93 (93) 19 >1z1b_A Integrase; protein-DNA 99.4 8.5E-13 2.5E-17 101.3 10.3 90 70-159 1-92 (92) 20 >2kj5_A Phage integrase; GFT N 99.4 3.2E-13 9.4E-18 104.1 6.5 104 65-170 3-109 (116) 21 >2a3v_A Site-specific recombin 99.2 8.1E-11 2.4E-15 88.4 8.4 88 72-159 3-94 (94) 22 >1a0p_A Site-specific recombin 99.1 1.9E-10 5.7E-15 86.0 8.5 92 71-162 2-99 (100) 23 >1xo0_A Recombinase CRE; CRE r 99.1 1.7E-10 5E-15 86.4 7.7 106 72-178 2-113 (114) 24 >2kkp_A Phage integrase; SAM-l 99.1 7E-11 2.1E-15 88.8 3.8 85 90-174 2-90 (91) 25 >3ju0_A Phage integrase; four 91.1 0.23 6.7E-06 27.0 3.5 73 8-80 23-107 (108) 26 >1flo_A FLP recombinase; tyros 81.7 2.9 8.7E-05 19.7 6.8 132 193-325 28-195 (272) 27 >1aih_A HP1 integrase; DNA int 81.1 0.34 1E-05 25.8 -0.1 32 216-247 2-33 (37) 28 >1z1b_A Integrase; protein-DNA 77.3 3.1 9.2E-05 19.6 3.9 35 5-43 10-45 (59) 29 >3jtz_A Integrase; four strand 49.1 14 0.00041 15.4 3.8 44 8-51 23-69 (88) 30 >2k8e_A UPF0339 protein YEGP; 35.0 17 0.0005 14.8 1.3 39 8-46 18-57 (130) 31 >2com_A Lysine-specific histon 33.5 24 0.00071 13.8 4.3 66 89-160 4-69 (85) 32 >2nu8_B SCS-beta, succinyl-COA 31.1 26 0.00078 13.6 3.2 53 110-162 66-120 (152) 33 >2fp4_B Succinyl-COA ligase [G 31.1 26 0.00078 13.6 3.7 53 110-162 67-121 (152) 34 >2o5r_A Glutamyl-tRNA syntheta 30.9 26 0.00078 13.5 2.0 50 262-313 29-80 (93) 35 >1jko_C HIN recombinase, DNA-i 30.4 27 0.0008 13.5 3.9 33 292-325 12-44 (52) 36 >2ysf_A E3 ubiquitin-protein l 26.6 31 0.00093 13.1 3.6 25 1-25 2-26 (40) 37 >1irx_A Lysyl-tRNA synthetase; 25.9 32 0.00096 13.0 1.9 49 262-312 28-78 (90) 38 >1vz0_A PARB, chromosome parti 25.8 32 0.00096 13.0 4.9 30 293-323 27-56 (59) 39 >1tk7_A CG4244-PB; WW domain, 25.5 33 0.00096 12.9 1.4 23 2-24 2-24 (38) 40 >1r71_A Transcriptional repres 25.5 33 0.00097 12.9 4.9 33 290-323 41-73 (76) 41 >1hmj_A RPB5, protein (subunit 24.3 30 0.00088 13.2 1.0 47 170-216 11-61 (78) 42 >2ysh_A GAS-7, growth-arrest-s 23.2 36 0.0011 12.6 3.6 24 1-24 2-25 (40) 43 >1j09_A Glutamyl-tRNA syntheta 23.0 37 0.0011 12.6 2.8 50 262-313 37-88 (100) 44 >2jpc_A SSRB; DNA binding prot 22.3 38 0.0011 12.5 5.5 37 290-327 2-38 (61) 45 >1ymz_A CC45; artificial prote 21.3 40 0.0012 12.4 3.0 25 1-25 3-27 (43) 46 >2auw_A Hypothetical protein N 20.7 41 0.0012 12.3 4.5 32 292-324 5-36 (81) 47 >3c57_A Two component transcri 20.6 41 0.0012 12.3 5.2 36 290-326 31-66 (95) No 1 >>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} (A:167-356) Probab=99.87 E-value=3.6e-21 Score=155.73 Aligned_cols=163 Identities=13% Similarity=0.131 Sum_probs=121.5 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHCC-CCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEC--CCCCCCCCHHHHH--HCC Q ss_conf 64324444211652344566664037-808999989898618873100256640144302--3321133102433--112 Q gi|254780134|r 163 RPKRKTEGIRPWTKEDMQQFKSFWSE-GSQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNI--FSIKTQKTGTIIT--VEL 237 (348) Q Consensus 163 ~~~~~~~~~~~~t~~ei~~~~~~~~~-~~~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~--i~~~~~Kt~~~~~--vpl 237 (348) +++.......+++++|+.+|++++.. +...++++.|+++||||.||+++|+|+|||... +.+...+++.... .+. T Consensus 3 k~k~~~~~~~~lt~eei~~l~~~~~~~~~~~~~~~~l~~~tGlR~~E~~~l~~~di~~~~~~~~~~~~~~~~~~~~~~~~ 82 (190) T 1z1b_A 3 RAAKSKVRRSRLTADEYLKIYQAAESSPCWLRLAMELAVVTGQRVGDLCEMKWSDIVDGYLYVEQSKTGVKIAIPTALHI 82 (190) T ss_dssp CCCCCCCCBCCCCHHHHHHHHHHTTSSCHHHHHHHHHHHHHCCCHHHHTTCBGGGEETTEEEEECTTTCCEEEEETTCEE T ss_pred CCCCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCH T ss_conf 22233443322203667664201224550245788999874124466433332212232222223444330212554210 Q ss_pred H----HHHHHHH-HHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC----CCCCHHHHHHHHHHHHCCCCHHHHH Q ss_conf 1----6899999-64201332211222457758778999999999983889----9814026999999998489988999 Q gi|254780134|r 238 P----DGFMKLL-AMTPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVN----KSAHGVRKFSATISADAGATAHELM 308 (348) Q Consensus 238 ~----~~l~~~l-~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~----~~~H~lRht~at~l~~~G~~~~~i~ 308 (348) . ..+.... .........+|.+..+...........+..+...++.. ...|.+||||||.|.++|+++..|+ T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~t~at~l~~~g~~~~~i~ 162 (190) T 1z1b_A 83 DALGISMKETLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSFEGDPPTFHELRSLSARLYEKQISDKFAQ 162 (190) T ss_dssp TTTTEEHHHHHHHHHHHTCSSBSSCCTTSCCCCHHHHHHHHHHHHHHHTCCCSSBCCCTTHHHHHHHHHHHHHTCHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCCCEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH T ss_conf 25677654433310345777314115567757888999999999998599978899974828999999998699999999 Q ss_pred HHHCCCCHHHHHHHHHH Q ss_conf 99649998999999999 Q gi|254780134|r 309 ATYGWKTVDQAETYTKG 325 (348) Q Consensus 309 ~~lGHss~~~t~~Y~~~ 325 (348) ++|||+|..||++|... T Consensus 163 ~~lGH~~~~~T~~yy~~ 179 (190) T 1z1b_A 163 HLLGHKSDTMASQXRDD 179 (190) T ss_dssp HHHTCSSHHHHHHHTCC T ss_pred HHHCCCCHHHHHHHHCC T ss_conf 98389988999988327 No 2 >>1a0p_A Site-specific recombinase XERD; DNA binding, DNA recombination; 2.50A {Escherichia coli} (A:101-290) Probab=99.85 E-value=2.8e-21 Score=156.39 Aligned_cols=164 Identities=15% Similarity=0.136 Sum_probs=106.4 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHCCCC----HHHHHHHHHHHCCCCCCCCCCCCCCEEEEE--CCCCCCCCCHHHHHHCC Q ss_conf 432444421165234456666403780----899998989861887310025664014430--23321133102433112 Q gi|254780134|r 164 PKRKTEGIRPWTKEDMQQFKSFWSEGS----QPRLAFEFLLYSGLRCSDSCRAGVQHLQNN--IFSIKTQKTGTIITVEL 237 (348) Q Consensus 164 ~~~~~~~~~~~t~~ei~~~~~~~~~~~----~~~~~~~l~~~TG~R~~Ei~~L~~~did~~--~i~~~~~Kt~~~~~vpl 237 (348) ||.+.....++|+||+.+|+++..... +.+++|.++++||||.||+++|+|+||+.+ .+.+...++......+. T Consensus 1 PK~~~~~~~~lt~eel~~ll~~~~~~~~~~~r~~~i~~l~~~TGlR~~Ei~~L~~~di~~~~~~i~i~~~~~~~~~~~~~ 80 (190) T 1a0p_A 1 PKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLG 80 (190) T ss_dssp --------CCCCHHHHHHHHHCSCTTSHHHHHHHHHHHHHHHHCCCHHHHTTCBGGGEETTTTEEEEECSSSCEEEEECC T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHCCCCHHHCCCCCCEEEECCCCCCCCCCEEC T ss_conf 64110232222222222222222101133689999999865641204554058499905423289966889820101001 Q ss_pred HHHHHHHHHH---H------CCCCCCCCCCCCCCCCCHHHHHHH--HHHHHHHCCC-CCCCCHHHHHHHHHHHHCCCCHH Q ss_conf 1689999964---2------013322112224577587789999--9999998388-99814026999999998489988 Q gi|254780134|r 238 PDGFMKLLAM---T------PIGKETFFINNDKQKMNATQFSIW--FKAKATKAGV-NKSAHGVRKFSATISADAGATAH 305 (348) Q Consensus 238 ~~~l~~~l~~---~------~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~~~agi-~~~~H~lRht~at~l~~~G~~~~ 305 (348) .......... . .......+......+......... +.......+. ..++|++||||+|.+.++|+++. T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~Rht~~t~~~~~~~~~~ 160 (190) T 1a0p_A 81 EEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLR 160 (190) T ss_dssp HHHHHHHHHHHHHTHHHHHTTCCCCBSSBCTTSSBCCHHHHHHHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHHCSSCG T ss_pred CCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCHH T ss_conf 11003567777652021122345655443222232111789999999999946899987765188999999998789999 Q ss_pred HHHHHHCCCCHHHHHHHHHHHH Q ss_conf 9999964999899999999998 Q gi|254780134|r 306 ELMATYGWKTVDQAETYTKGAD 327 (348) Q Consensus 306 ~i~~~lGHss~~~t~~Y~~~~~ 327 (348) .||.+|||+|+.||++|++..+ T Consensus 161 ~i~~~lGH~s~~~T~~Y~~~~~ 182 (190) T 1a0p_A 161 VVQMLLGHSDLSTTQIYTHVAT 182 (190) T ss_dssp GGSSCC--CCCCHHHHHHHHHH T ss_pred HHHHHHCCCCHHHHHHHHCCCH T ss_conf 9998818998899999977899 No 3 >>1xo0_A Recombinase CRE; CRE recombinase, holliday junction, recombination,complex (recombinase/DNA), hydrolase, ligase/DNA complex; 2.00A {Enterobacteria phage P1} (A:115-310) Probab=99.84 E-value=5.6e-22 Score=160.97 Aligned_cols=154 Identities=16% Similarity=0.169 Sum_probs=110.9 Q ss_pred CCCCHHHHHHHHHHHCCC-----CHHHHHHHHHHHCCCCCCCCCCCCCCEEEE--ECCCCCC------CCCHHHHHHCCH Q ss_conf 116523445666640378-----089999898986188731002566401443--0233211------331024331121 Q gi|254780134|r 172 RPWTKEDMQQFKSFWSEG-----SQPRLAFEFLLYSGLRCSDSCRAGVQHLQN--NIFSIKT------QKTGTIITVELP 238 (348) Q Consensus 172 ~~~t~~ei~~~~~~~~~~-----~~~~~~~~l~~~TG~R~~Ei~~L~~~did~--~~i~~~~------~Kt~~~~~vpl~ 238 (348) +++|.+|+.++++.+... ...++++.|+++||||.+|+++|+|+||+. +.+.+.. .+......+|+. T Consensus 2 r~lt~~e~~~l~~~~~~~~~~~~~r~~~~~~l~~~tG~R~~Ei~~L~~~di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (196) T 1xo0_A 2 LAFERTDFDQVRSLMENSDRCQDIRNLAFLGIAYNTLLKIAEIARIRVKDISRTDGGRMLIHIGRTKTLVSTAGVEKALS 81 (196) T ss_dssp CCCCHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHCCCHHHHHHCBGGGEEEEETTEEEEEECCCCSSSSCSCEEEEEC T ss_pred CCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCCCCCCCCEEEEHH T ss_conf 43017888899986403024678999999974223566676653101222222210011000000012456662120047 Q ss_pred HHHHHHHHHHCCC------------------------CCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC--CCCCHHHHH Q ss_conf 6899999642013------------------------32211222457758778999999999983889--981402699 Q gi|254780134|r 239 DGFMKLLAMTPIG------------------------KETFFINNDKQKMNATQFSIWFKAKATKAGVN--KSAHGVRKF 292 (348) Q Consensus 239 ~~l~~~l~~~~~~------------------------~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~--~~~H~lRht 292 (348) +.....+...... ...++.+..+.+.+..++...++..+...|++ .++|+|||| T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~lRht 161 (196) T 1xo0_A 82 LGVTKLVERWISVSGVADDPNNYLFCRVRKNGVAAPSATSQLSTRALEGIFEATHRLIYGAKDDSGQRYLAWSGHSARVG 161 (196) T ss_dssp HHHHHHHHHHHHHHCGGGSTTSBSSCEECTTSCEECCSSCCCCHHHHHHHHHHHHHHHHCSCCCSCCSCSSCCTTHHHHH T ss_pred HHHHHHHHHHHHHHCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHH T ss_conf 88999999888872122112201222134321245433564311588888899999999999972888888788613899 Q ss_pred HHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 999999848998899999649998999999999 Q gi|254780134|r 293 SATISADAGATAHELMATYGWKTVDQAETYTKG 325 (348) Q Consensus 293 ~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~ 325 (348) |||.+.+.|+++.+|+++|||+|..||++|.+. T Consensus 162 ~at~l~~~g~~~~~i~~~lGH~~~~~t~~Y~~~ 194 (196) T 1xo0_A 162 AARDMARAGVSIPEIMQAGGWTNVNIVMNYIRN 194 (196) T ss_dssp HHHHHHHTTCCHHHHHHHHTCSSSSSHHHHSTT T ss_pred HHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHC T ss_conf 999999878999999988199988999999725 No 4 >>1z19_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 2.80A {Enterobacteria phage lambda} PDB: 1p7d_A* (A:94-283) Probab=99.83 E-value=6.6e-20 Score=147.52 Aligned_cols=165 Identities=13% Similarity=0.119 Sum_probs=117.8 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHCC-CCHHHHHHHHHHHCCCCCCCCCCCCCCEEEE--ECCCCCCCCCHHHHHH--C Q ss_conf 464324444211652344566664037-8089999898986188731002566401443--0233211331024331--1 Q gi|254780134|r 162 ERPKRKTEGIRPWTKEDMQQFKSFWSE-GSQPRLAFEFLLYSGLRCSDSCRAGVQHLQN--NIFSIKTQKTGTIITV--E 236 (348) Q Consensus 162 ~~~~~~~~~~~~~t~~ei~~~~~~~~~-~~~~~~~~~l~~~TG~R~~Ei~~L~~~did~--~~i~~~~~Kt~~~~~v--p 236 (348) .+|+.......+++.+|+.+|++.+.. +...++++.|+++||||.||+++|+|+|||. ..+.+...+++....+ + T Consensus 2 ~k~k~~~~~~~~lt~ee~~~l~~~~~~~~~~~~~~~~l~~~tG~R~~El~~l~~~di~~~~~~~~i~~~~~~~~~~~~~~ 81 (190) T 1z19_A 2 TRAAKSKVRRSRLTADEYLKIYQAAESSPCWLRLAXELAVVTGQRVGDLCEXKWSDIVDGYLYVEQSKTGVKIAIPTALH 81 (190) T ss_dssp SCCCCCCCCCCCCCHHHHHHHHHHGGGSCHHHHHHHHHHHHSCCCHHHHTTCBGGGEETTEEEEECTTTCCEEEEETTCE T ss_pred CCCCCCCCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEECCCCCEECCCCCCEEEECCCCC T ss_conf 11222222223330366764202210022788999999998076533445454202312420000146785133113630 Q ss_pred CHH----HHHHH-HHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC----CCCCCCHHHHHHHHHHHHCCCCHHHH Q ss_conf 216----89999-9642013322112224577587789999999999838----89981402699999999848998899 Q gi|254780134|r 237 LPD----GFMKL-LAMTPIGKETFFINNDKQKMNATQFSIWFKAKATKAG----VNKSAHGVRKFSATISADAGATAHEL 307 (348) Q Consensus 237 l~~----~l~~~-l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ag----i~~~~H~lRht~at~l~~~G~~~~~i 307 (348) ... ..... ..........+|....|.+.........+........ .....|.+||++||.|+++|+++..| T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~a~~l~~~g~~~~~i 161 (190) T 1z19_A 82 IDALGISXKETLDKCKEILGGETIIASTRREPLSSGTVSRYFXRARKASGLSFEGDPPTFHELRSLSARLYEKQISDKFA 161 (190) T ss_dssp ETTTTEEHHHHHHHHHHHHCSSBSSCCTTSSCCCHHHHHHHHHHHHHHTTCCCSSSCCCGGGHHHHHHHHHHHHTCHHHH T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHH T ss_conf 14678888888876402577642012111211002677789999999847776789997384999999999869899999 Q ss_pred HHHHCCCCHHHHHH-HHHHH Q ss_conf 99964999899999-99999 Q gi|254780134|r 308 MATYGWKTVDQAET-YTKGA 326 (348) Q Consensus 308 ~~~lGHss~~~t~~-Y~~~~ 326 (348) +++|||+|.+||++ |.+.. T Consensus 162 ~~~lGH~~~~~T~~~Y~~~~ 181 (190) T 1z19_A 162 QHLLGHKSDTXASQXRDDRG 181 (190) T ss_dssp HHHHTCSSSCC--------- T ss_pred HHHHCCCCHHHHHHHHCCCH T ss_conf 99948998899999852748 No 5 >>2a3v_A Site-specific recombinase INTI4; protein-DNA complex, recombination; HET: DNA; 2.80A {Vibrio cholerae o1 biovar eltor str} (A:95-144,A:243-320) Probab=99.81 E-value=2.1e-20 Score=150.80 Aligned_cols=113 Identities=23% Similarity=0.310 Sum_probs=99.7 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCHHHHH Q ss_conf 64324444211652344566664037808999989898618873100256640144302332113310243311216899 Q gi|254780134|r 163 RPKRKTEGIRPWTKEDMQQFKSFWSEGSQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVELPDGFM 242 (348) Q Consensus 163 ~~~~~~~~~~~~t~~ei~~~~~~~~~~~~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vpl~~~l~ 242 (348) +|+.+.....+++.+|+.++++.++ .+.++++.|++.||||+||+++|+| T Consensus 1 rpk~~~~lp~~l~~~e~~~ll~~~~--~r~~~~~~ll~~~GlR~~E~~~l~~---------------------------- 50 (128) T 2a3v_A 1 RSQLERKLPVVLTRDEIRRLLEIVD--PKHQLPIKLLYGSGLRLMECMRLRV---------------------------- 50 (128) T ss_dssp CCCCCCCCCCCCCHHHHHHHTTSSC--HHHHHHHHHHHHSCCCHHHHHTCBG---------------------------- T ss_pred HHHHHCCCCCCCHHHHHHHCCCCCC--HHHHHHHHHHHHHCCCCCCCCCCHH---------------------------- T ss_conf 1000001222310355420000000--2588899998750012233333111---------------------------- Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC--CCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHH Q ss_conf 99964201332211222457758778999999999983889--9814026999999998489988999996499989999 Q gi|254780134|r 243 KLLAMTPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVN--KSAHGVRKFSATISADAGATAHELMATYGWKTVDQAE 320 (348) Q Consensus 243 ~~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~--~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t~ 320 (348) +.++++..|+++++++|++ .++|+|||||||.++++|+++..||.+|||+|..||+ T Consensus 51 ----------------------s~~~i~~~~k~~~~~agi~~~~~~H~lRHT~aT~l~~~G~~~~~i~~~lGHss~~~t~ 108 (128) T 2a3v_A 51 ----------------------NETVLQKAVRRSAQEAGIEKTVTCHTLRHSFATHLLEVGADIRTVQEQLGHTDVKTTQ 108 (128) T ss_dssp ----------------------CHHHHHHHHHHHHHTTCCCSCCCHHHHHHHHHHHHHHTTCCHHHHHHHHTCSSHHHHG T ss_pred ----------------------CHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHH T ss_conf ----------------------6899999999999985999999871149999999998789999999884899989999 Q ss_pred HHHHHHH Q ss_conf 9999998 Q gi|254780134|r 321 TYTKGAD 327 (348) Q Consensus 321 ~Y~~~~~ 327 (348) +|++..+ T Consensus 109 ~Y~h~~~ 115 (128) T 2a3v_A 109 IYTHVLD 115 (128) T ss_dssp GGCC--- T ss_pred HHHCCCH T ss_conf 9884699 No 6 >>1ae9_A Lambda integrase; DNA recombination, site-specific recombination; 1.90A {Bacteriophage lambda} (A:) Probab=99.78 E-value=3.1e-18 Score=136.68 Aligned_cols=154 Identities=12% Similarity=0.104 Sum_probs=99.7 Q ss_pred CCCCHHHHHHHHHHHCC-CCHHHHHHHHHHHCCCCCCCCCCCCCCEEEE--ECCCCCCCCCHHHHH--HC----CHHHHH Q ss_conf 11652344566664037-8089999898986188731002566401443--023321133102433--11----216899 Q gi|254780134|r 172 RPWTKEDMQQFKSFWSE-GSQPRLAFEFLLYSGLRCSDSCRAGVQHLQN--NIFSIKTQKTGTIIT--VE----LPDGFM 242 (348) Q Consensus 172 ~~~t~~ei~~~~~~~~~-~~~~~~~~~l~~~TG~R~~Ei~~L~~~did~--~~i~~~~~Kt~~~~~--vp----l~~~l~ 242 (348) ++++++|+.+|++.+.. +...++++.|+++||||+||+++|+|+|||. +.+.+...+++.... .+ ...... T Consensus 2 r~lt~~ei~~l~~~~~~~~~~~~~~~~l~~~tGlR~~Ei~~L~~~di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (179) T 1ae9_A 2 SRLTADEYLKIYQAAESSPCWLRLAMELAVVTGQRVGDLCEMKWSDIVDGYLYVEQSKTGVKIAIPTALHIDALGISMKE 81 (179) T ss_dssp CCCCHHHHHHHHHHGGGSCHHHHHHHHHHHHHCCCHHHHHHCBGGGEETTEEEEECTTTCCEEEEETTCEEGGGTEEHHH T ss_pred CCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCHHHHCCCCCEEEECCCCCCCCCCCCEEEECCCHHHHHHHHHHHH T ss_conf 98999999999998866889999999999997789144402502255310122213465431430365166777775443 Q ss_pred HHHHH-HCCCCCCCCCCCCCCCCCHHHHHHHHHHH-HHHC-CC--CCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHH Q ss_conf 99964-20133221122245775877899999999-9983-88--99814026999999998489988999996499989 Q gi|254780134|r 243 KLLAM-TPIGKETFFINNDKQKMNATQFSIWFKAK-ATKA-GV--NKSAHGVRKFSATISADAGATAHELMATYGWKTVD 317 (348) Q Consensus 243 ~~l~~-~~~~~~~~~~~~~g~~~~~~~~~~~~~~~-~~~a-gi--~~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~ 317 (348) ..... ........+....+...........+... .... +. ..+.|++||++++.+.++|+++..||++|||++.+ T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~g~~~~~i~~~lGH~~~~ 161 (179) T 1ae9_A 82 TLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSFEGDPPTFHELRSLSARLYEKQISDKFAQHLLGHKSDT 161 (179) T ss_dssp HHHHHHHHTCCSBSSCCTTSCCCCHHHHHHHHHHHHHHHTCCCSSSCCCTTHHHHHHHHHHHHHTCHHHHHHHHTC---- T ss_pred HHHCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHH T ss_conf 32101245765313432157876532136666666531123445430268899888999999499999999993899999 Q ss_pred HHHHHHHH Q ss_conf 99999999 Q gi|254780134|r 318 QAETYTKG 325 (348) Q Consensus 318 ~t~~Y~~~ 325 (348) ||++|.+. T Consensus 162 tT~~Y~~~ 169 (179) T 1ae9_A 162 MASQFRDD 169 (179) T ss_dssp ----CEEC T ss_pred HHHHHHHC T ss_conf 99998736 No 7 >>1aih_A HP1 integrase; DNA integration, recombination; 2.50A {Bacteriophage HP1} (A:1-49,A:87-170) Probab=99.71 E-value=2.7e-17 Score=130.50 Aligned_cols=105 Identities=16% Similarity=0.125 Sum_probs=89.5 Q ss_pred CCCCHHHHHHHHHHHCC--CCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCHHHHHHHHHHHC Q ss_conf 11652344566664037--8089999898986188731002566401443023321133102433112168999996420 Q gi|254780134|r 172 RPWTKEDMQQFKSFWSE--GSQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVELPDGFMKLLAMTP 249 (348) Q Consensus 172 ~~~t~~ei~~~~~~~~~--~~~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vpl~~~l~~~l~~~~ 249 (348) .-++.+|+..++++++. ++....++.||+.||||.||+++|+|.- T Consensus 5 ~~l~~~e~~~l~~~~~~~~~~~l~~~~~~~~~t~~r~~e~~~l~~~~--------------------------------- 51 (133) T 1aih_A 5 AFLYERDIYRLLAECDNSRNPDLGLIVRICLATGARWSEAETLTQLF--------------------------------- 51 (133) T ss_dssp CCCCHHHHHHHHHHHTTSSSTTHHHHHHHHHHHCCCHHHHHTCBTSS--------------------------------- T ss_pred CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHCC--------------------------------- T ss_conf 68999999999998646589669999999999776466788764021--------------------------------- Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC----CCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 1332211222457758778999999999983889----981402699999999848998899999649998999999999 Q gi|254780134|r 250 IGKETFFINNDKQKMNATQFSIWFKAKATKAGVN----KSAHGVRKFSATISADAGATAHELMATYGWKTVDQAETYTKG 325 (348) Q Consensus 250 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~----~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~ 325 (348) +++.+.|+++++++|+. .++|+|||||||.|.++|+|+..||.+|||+|..||++|++. T Consensus 52 -----------------~~i~~~~~~~~~~agi~~~~~it~H~lRHT~At~l~~~G~d~~~Iq~~lGH~s~~tT~~Y~~~ 114 (133) T 1aih_A 52 -----------------NDAYESFENAVLRAEIELPKGQLTHVLRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAHF 114 (133) T ss_dssp -----------------CCCHHHHHHHHHHTTCCCCTTCTTTHHHHHHHHHHHHTTCCHHHHHHHHTCSSHHHHGGGGGG T ss_pred -----------------CCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHCCCCCHHHHHHHHCC T ss_conf -----------------110124433456765125876200246887737877447309899998089988999877667 Q ss_pred H Q ss_conf 9 Q gi|254780134|r 326 A 326 (348) Q Consensus 326 ~ 326 (348) . T Consensus 115 ~ 115 (133) T 1aih_A 115 A 115 (133) T ss_dssp S T ss_pred C T ss_conf 9 No 8 >>2kiw_A INT protein; alpha, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; NMR {Staphylococcus haemolyticus JCSC1435} (A:) Probab=99.62 E-value=4.2e-15 Score=116.26 Aligned_cols=109 Identities=17% Similarity=0.200 Sum_probs=100.8 Q ss_pred CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHHH Q ss_conf 7899999999835543569788999999999999995699958969999999887515--99789999999999999644 Q gi|254780134|r 70 TLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMRVLFKWA 147 (348) Q Consensus 70 Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~~~~~~a 147 (348) ||+++++.|+...+ .+++++|+..|+..++++.+.+|+.++.+||+.++++|++.+. .++.|+|.+++.|+.+|+|| T Consensus 1 T~~~~~~~~l~~~~-~~~s~~T~~~~~~~~~~~~~~~g~~~i~~it~~~i~~~~~~l~~~~s~~t~~~~~~~l~~~~~~a 79 (111) T 2kiw_A 1 TFKQVADDWLKQYA-NDVKVSSVRAREKAIQHAIERFNTKPIQTIKKHDYQRFVDDISAQYSKNYVDSIVASTNMIFKYA 79 (111) T ss_dssp CHHHHHHHHHHHHT-TSSCHHHHHHHHHHHHHHHHHTTSSCGGGCCHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH T ss_conf 99999999999976-11899999999999999999987892999359999999998864403999998999999999999 Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHH Q ss_conf 55200105665103464324444211652344 Q gi|254780134|r 148 VRQEYVAINPCLSVERPKRKTEGIRPWTKEDM 179 (348) Q Consensus 148 ~~~~~i~~NP~~~v~~~~~~~~~~~~~t~~ei 179 (348) +++|++..||+..|+.++......++++.+|. T Consensus 80 ~~~~~i~~nP~~~i~~~~~~~~~~~~ls~~Eq 111 (111) T 2kiw_A 80 YDTRLIKAMPSEGIKRPKKKVSVELEHHHHHH 111 (111) T ss_dssp HHTTSCSCCTTTTCCCCSCCCCCCCSSCCCCC T ss_pred HHCCCCCCCCHHHCCCCCCCCCHHHHCCCCCC T ss_conf 99789231818538578888778877112359 No 9 >>2kob_A Uncharacterized protein; alpha beta, structural genomics, PSI-2, protein structure initiative; NMR {Clostridium leptum dsm 753} (A:) Probab=99.62 E-value=3.5e-15 Score=116.76 Aligned_cols=103 Identities=17% Similarity=0.179 Sum_probs=97.1 Q ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH Q ss_conf 48789999999983554356978899999999999999569995896999999988751599789999999999999644 Q gi|254780134|r 68 PTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRKHTPSSAIQFLTSMRVLFKWA 147 (348) Q Consensus 68 ~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~~~~~t~n~~~~~l~~~~~~a 147 (348) .+||+++++.|+......+++++|...|+..++++.+.+|+.++.+||+.+|++|++++..++.|+++.++.|+++|+|| T Consensus 1 k~t~~~~~~~~l~~~~~~~~s~~T~~~y~~~~~~~~~~~g~~~i~~it~~~i~~~l~~~~~s~~t~~~~~~~l~~~~~~a 80 (108) T 2kob_A 1 RDSFGDWAEKFLKSKEADGVSVSQLNSYKNYCRNHLSPLYMKSLSEILPADIQSIINETKLAKNTLKAIRNTASQIFRLA 80 (108) T ss_dssp CCBHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHTSHHHHTSBGGGCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHCCCCCCCCCEEEHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH T ss_conf 93699999999998140786846531233333122100277540102688874000010101889999999999999999 Q ss_pred HHHHHHHHHHHHCCCCCCCCCCC Q ss_conf 55200105665103464324444 Q gi|254780134|r 148 VRQEYVAINPCLSVERPKRKTEG 170 (348) Q Consensus 148 ~~~~~i~~NP~~~v~~~~~~~~~ 170 (348) ++.|++..||+.+|+.++.+... T Consensus 81 ~~~~~i~~NP~~~i~~~~~~~~~ 103 (108) T 2kob_A 81 IENRAIDFNPADYVRIPKIALEH 103 (108) T ss_dssp HHTTSSSSCGGGTCCCCCCCCSS T ss_pred HHCCCCCCCHHHCCCCCCCCCCC T ss_conf 87789236905308578988644 No 10 >>2oxo_A Integrase; DNA-binding protein, four-helix bundle, DNA binding protein; 2.00A {Unidentified phage} (A:) Probab=99.57 E-value=1.7e-14 Score=112.40 Aligned_cols=100 Identities=20% Similarity=0.194 Sum_probs=93.8 Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHH Q ss_conf 87899999999835543569788999999999999995699958969999999887515--9978999999999999964 Q gi|254780134|r 69 TTLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMRVLFKW 146 (348) Q Consensus 69 ~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~~~~~~ 146 (348) +||+++++.|+......+++++|+..|...++++.+.+|+.++.+|++.||++|++.+. .++.|+++.++.|+++|+| T Consensus 1 it~~~~~~~~~~~~~~~~~s~~T~~~y~~~~~~~~~~~~~~~i~~i~~~~i~~~~~~l~~~~s~~t~~~~~~~l~~~f~~ 80 (103) T 2oxo_A 1 MTLHSWLDRYEKILASRGIKQKTLINYMSKIKAIRRGLPDAPLEDITTKEIAAMLNGYIDEGKAASAKLIRSTLSDAFRE 80 (103) T ss_dssp CBHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHSCSCBGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH T ss_conf 95999999999999886999999999999999999998549866625899999999999861605545679999999999 Q ss_pred HHHHHHHHHHHHHCCCCCCCCC Q ss_conf 4552001056651034643244 Q gi|254780134|r 147 AVRQEYVAINPCLSVERPKRKT 168 (348) Q Consensus 147 a~~~~~i~~NP~~~v~~~~~~~ 168 (348) |++.|+++.||+.+|+.++.+. T Consensus 81 a~~~g~i~~NP~~~i~~~k~~~ 102 (103) T 2oxo_A 81 AIAEGHITTNHVAATRAAKSEV 102 (103) T ss_dssp HHHTTSCSSCTTC--------- T ss_pred HHHCCCCCCCCHHHCCCCCCCC T ss_conf 9983985679342267678777 No 11 >>2khq_A Integrase; all-alpha, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; NMR {Staphylococcus saprophyticus subsp} (A:) Probab=99.57 E-value=2.4e-14 Score=111.35 Aligned_cols=103 Identities=15% Similarity=0.149 Sum_probs=95.4 Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHH Q ss_conf 87899999999835543569788999999999999995699958969999999887515--9978999999999999964 Q gi|254780134|r 69 TTLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMRVLFKW 146 (348) Q Consensus 69 ~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~~~~~~ 146 (348) .||+++++.|+.+....+++++|...|+..++++.+.+|+.++.+|++.+|++|++.+. .++.|++..++.|+++|+| T Consensus 2 it~~~~~~~~~~~~~~~~~s~~T~~~y~~~~~~~~~~~~~~~i~~i~~~~i~~~~~~l~~~~s~~t~~~~~~~l~~~f~~ 81 (110) T 2khq_A 2 ITFADYFYQWYEVNKLPHVSESTKRHYESAYKHIKDHFRHKLLKDIKRTEYQKFLNEYGLTHSYETIRKLNSYIRNAFDD 81 (110) T ss_dssp CBHHHHHHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHCSSCBGGGCCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHH T ss_pred EEHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHCCCHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH T ss_conf 83899999999986427789999999999886017773810685436999999999863015889999999999999999 Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCC Q ss_conf 4552001056651034643244442 Q gi|254780134|r 147 AVRQEYVAINPCLSVERPKRKTEGI 171 (348) Q Consensus 147 a~~~~~i~~NP~~~v~~~~~~~~~~ 171 (348) |++.|+++.||+.+++.++.+.+.. T Consensus 82 a~~~~~i~~nP~~~i~~~~~~~~~~ 106 (110) T 2khq_A 82 AIHEGYVIKNPTYKAELHASVLEHH 106 (110) T ss_dssp HHHTTCCCCCGGGGCCCCCGGGCCC T ss_pred HHHCCCCCCCCCCCCEECCCHHHHC T ss_conf 9988791019877787464311211 No 12 >>2kd1_A DNA integration/recombination/invertion protein; protein structure initiative, structural genomics, unknown function, PSI-2; HET: DNA; NMR {Bacillus cereus atcc 14579} (A:) Probab=99.54 E-value=5e-14 Score=109.26 Aligned_cols=111 Identities=15% Similarity=0.253 Sum_probs=100.3 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-HHHHHCCCCHHHCCHHHHHHHHHHH---CCCHHHHHHHHHHHH Q ss_conf 344878999999998355435697889999999999-9999569995896999999988751---599789999999999 Q gi|254780134|r 66 KKPTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQ-IIRKSGDFDYRKITTKHIRSGVESR---KHTPSSAIQFLTSMR 141 (348) Q Consensus 66 ~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~-~~~~~g~~~l~~it~~~i~~~~~~~---~~~~~t~n~~~~~l~ 141 (348) ....||.++++.|+...+ .+++++|+..|+..++. +.+.+|+.++.+|++.+|++|++.+ +.+++|++.+++.|+ T Consensus 3 ~~~~t~~~~~~~~l~~~~-~~~s~~T~~~y~~~l~~~~~~~~~~~~i~~i~~~~i~~~~~~l~~~g~s~~t~~~~~~~l~ 81 (118) T 2kd1_A 3 PSKLSYGEYLESWFNTKR-HSVGIQTAKVLKGYLNSRIIPSLGNIKLAKLTSLHMQNYVNSLRDEGLKRGTIEKIIKVIR 81 (118) T ss_dssp CSCSBHHHHHHHHHHHHH-HHHCHHHHHHHHHHHTTTHHHHTTSSBGGGCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHH T ss_pred CCCCCHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHCCEEHHHCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHH T ss_conf 760689999999999984-7389999999999999876288578079998999999999998863148999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHH Q ss_conf 999644552001056651034643244442116523 Q gi|254780134|r 142 VLFKWAVRQEYVAINPCLSVERPKRKTEGIRPWTKE 177 (348) Q Consensus 142 ~~~~~a~~~~~i~~NP~~~v~~~~~~~~~~~~~t~~ 177 (348) ++|+||++.|++..||+.+++.|+.......++|+| T Consensus 82 ~~~~~a~~~~~i~~nP~~~i~~~k~~~~~~~~lt~E 117 (118) T 2kd1_A 82 NSLEHAIDLELITKNVAAKTKLPKADKEELEHHHHH 117 (118) T ss_dssp HHHHHHHHTTSCSSCTTTTCCCCSCCCCSSSCCCCC T ss_pred HHHHHHHHCCCCCCCCHHHCCCCCCCCCCCCCCCCC T ss_conf 999999988895639184192899999751023667 No 13 >>2khv_A Phage integrase; solution structure, GFT, NESG, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Nitrosospira multiformis atcc 25196} (A:) Probab=99.53 E-value=2.8e-14 Score=110.90 Aligned_cols=102 Identities=12% Similarity=0.089 Sum_probs=93.4 Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HHHHHHCCCCHHHCCHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHH Q ss_conf 87899999999835543569788999999999-99999569995896999999988751-59978999999999999964 Q gi|254780134|r 69 TTLKWLISEYRKSAHWGSLAVNSRISFESYFD-QIIRKSGDFDYRKITTKHIRSGVESR-KHTPSSAIQFLTSMRVLFKW 146 (348) Q Consensus 69 ~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~-~~~~~~g~~~l~~it~~~i~~~~~~~-~~~~~t~n~~~~~l~~~~~~ 146 (348) +||+++++.|+.......++++|+..|...++ ++.+.+|+.++.+|++.+++++++.+ ..++.|+|++++.|+++|+| T Consensus 1 iT~~~~~~~~~~~~~~~~~~~~T~~~~~~~~~~~i~~~~g~~~i~~it~~~i~~~~~~~~~~s~~t~~~~~~~l~~~f~~ 80 (106) T 2khv_A 1 MTFSECAALYIKAHRSSWKNTKHADQWTNTIKTYCGPVIGPLSVQDVDTKLIMKVLDPIWEQKPETASRLRGRIESVLDW 80 (106) T ss_dssp CBHHHHHHHHHHTTGGGGTTSTHHHHHHHHHHHHTHHHHTTSBSSSCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 97999999999984204798669999999999873523499649997679999999999963289999999999999999 Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCC Q ss_conf 455200105665103464324444 Q gi|254780134|r 147 AVRQEYVAINPCLSVERPKRKTEG 170 (348) Q Consensus 147 a~~~~~i~~NP~~~v~~~~~~~~~ 170 (348) |++.|+++.||+.+|+.++...+. T Consensus 81 A~~~~~i~~Np~~~i~~~~~~~k~ 104 (106) T 2khv_A 81 ATVRGYREGDNPARWRGYLEHHHH 104 (106) T ss_dssp HHHHTSSCSCCTTSCSSTTTTTTC T ss_pred HHHCCCCCCCCHHHHHCCCCCCCC T ss_conf 999297678981888730201434 No 14 >>2key_A Putative phage integrase; protein structure, PSI, NESG, structural genomics, unknown function, protein structure initiative; NMR {Bacteroides fragilis nctc 9343} (A:) Probab=99.51 E-value=6.2e-14 Score=108.68 Aligned_cols=104 Identities=12% Similarity=0.204 Sum_probs=93.6 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHH----CCCHHHHHHHHHHH Q ss_conf 23448789999999983554356978899999999999999569995896999999988751----59978999999999 Q gi|254780134|r 65 RKKPTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESR----KHTPSSAIQFLTSM 140 (348) Q Consensus 65 ~~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~----~~~~~t~n~~~~~l 140 (348) .....||.++++.|++..+ .+++++|...|+..+++|.+.+|+.++.+|++.++++|++.+ +.+++|+|.+++.| T Consensus 4 ~~~~~t~~~~~~~~l~~~~-~~~~~~T~~~y~~~l~~~~~~~g~~~l~~i~~~~i~~~~~~l~~~~~~s~~t~~~~~~~l 82 (112) T 2key_A 4 PSDFKSFHDFVASYMKTYS-RRLEIGTFRHHKSCMRKFKEYCEGLQFHELTEDFLRDYLIYMKKTLCNADSTAQRNLSTI 82 (112) T ss_dssp TTCCCSHHHHHHHHTHHHH-TTSCHHHHHHHHHHHHHTTTSCSCCCTTTCCHHHHHHHHHHHHHTSCCCHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHH T ss_conf 5488899999999999998-369998999999999999876125997984988899999999887741806889999999 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCCC Q ss_conf 99996445520010566510346432444 Q gi|254780134|r 141 RVLFKWAVRQEYVAINPCLSVERPKRKTE 169 (348) Q Consensus 141 ~~~~~~a~~~~~i~~NP~~~v~~~~~~~~ 169 (348) +.+|+||++.|++..||+.+|+.|+.+.+ T Consensus 83 ~~~~~~a~~~~~i~~nP~~~i~~pk~~kr 111 (112) T 2key_A 83 KIYVSAAIKKGYMENDPFKDFGLEHHHHH 111 (112) T ss_dssp HHHHHHHHHTTSCCSCHHHHHTCCCCCSC T ss_pred HHHHHHHHHCCCCCCCCCCCEEEEECCCC T ss_conf 99999999888942187201053324667 No 15 >>2kkv_A Integrase; protein structure, PSI, nesgc, structural genomics, protein structure initiative, northeast structural genomics consortium; NMR {Salmonella enterica subsp} (A:) Probab=99.48 E-value=4.7e-14 Score=109.45 Aligned_cols=113 Identities=16% Similarity=0.266 Sum_probs=97.8 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HHHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHH Q ss_conf 234487899999999835543569788999999999-999995699958969999999887515--99789999999999 Q gi|254780134|r 65 RKKPTTLKWLISEYRKSAHWGSLAVNSRISFESYFD-QIIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMR 141 (348) Q Consensus 65 ~~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~-~~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~ 141 (348) .....||.+++++|+... .+++++|...|+..++ ++.+.||+.++.+|++.+|++|++.+. .++++++..++.|+ T Consensus 3 ~~~~~t~~~~~~~~~~~~--~~~~~~T~~~y~~~~~~~i~~~~g~~~i~~it~~~i~~~~~~l~~~~~~~t~~~~~~~l~ 80 (121) T 2kkv_A 3 NSGAYTFETIAREWHESN--KRWSEDHRSRVLRYLELYIFPHIGSSDIRQLKTSHLLAPIKEVDTSGKHDVAQRLQQRVT 80 (121) T ss_dssp SCCCCSHHHHHHHHHTTC--CSSCHHHHHHHHHHHHHHHSSSSTTSCTTCCCSGGGHHHHHHHHHTTTHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHHC--CCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHCHHHHHHHHHHHHCCCCHHHHHHHHHHHH T ss_conf 424048999999999977--978884999999999989999938826999763766777748750478799999999999 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCC--CCCCCCCCCCHHHH Q ss_conf 999644552001056651034643--24444211652344 Q gi|254780134|r 142 VLFKWAVRQEYVAINPCLSVERPK--RKTEGIRPWTKEDM 179 (348) Q Consensus 142 ~~~~~a~~~~~i~~NP~~~v~~~~--~~~~~~~~~t~~ei 179 (348) ++|+||++.|++..||+.+++.+. .......+++.+|| T Consensus 81 ~~~~~Av~~~~i~~NP~~~v~~~~~~~~~~~~~~lt~~Ei 120 (121) T 2kkv_A 81 AIMRYAVQNDYIDSNPASDMAGALSTTKARHYPLEHHHHH 120 (121) T ss_dssp HHHHHHHHTTSSCSCSCSSSSCCCSCCCCCSSCCTTCCCC T ss_pred HHHHHHHHCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCC T ss_conf 9999999878901186878987469999898998766677 No 16 >>2kj9_A Integrase; DNA_BRE_C superfamily, INTB, PSI-2, structural genomics, protein structure initiative; NMR {Pectobacterium atrosepticum} (A:) Probab=99.48 E-value=1.5e-13 Score=106.21 Aligned_cols=106 Identities=14% Similarity=0.224 Sum_probs=93.4 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HHHHHHCCCCHHHCCHHHHHHHHHHHCC--CHHHHHHHHHH Q ss_conf 23234487899999999835543569788999999999-9999956999589699999998875159--97899999999 Q gi|254780134|r 63 SPRKKPTTLKWLISEYRKSAHWGSLAVNSRISFESYFD-QIIRKSGDFDYRKITTKHIRSGVESRKH--TPSSAIQFLTS 139 (348) Q Consensus 63 ~~~~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~-~~~~~~g~~~l~~it~~~i~~~~~~~~~--~~~t~n~~~~~ 139 (348) .......||+++++.|+... .+++++|...|+..++ ++.+.||+.++.+|+..+|+.+++.+.. ++.++++.++. T Consensus 5 ~~~~~~~Tf~~~~~~~l~~~--~~~~~~T~~~~~~~~~~~i~~~~g~~~i~~it~~~i~~~~~~~~~~~s~~t~~~~~~~ 82 (118) T 2kj9_A 5 EKRNNTRAFKTVAKSWFATK--TTWSEDYQRSVWTRLETYLFPDIGNKDIAELDTGDLLVPIKKIEKLGYLEIAMRVKQY 82 (118) T ss_dssp SSSSSCSBHHHHHHHHHHTC--CSSCHHHHHHHHHHHHHTSSTTGGGSBGGGCCHHHHHHHHHHHHTTTCHHHHHHHHHH T ss_pred HHHHCCCCHHHHHHHHHHHC--CCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH T ss_conf 87773477999999999987--8888879999999999887898678859995589999999999990792889999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC Q ss_conf 9999964455200105665103464324444 Q gi|254780134|r 140 MRVLFKWAVRQEYVAINPCLSVERPKRKTEG 170 (348) Q Consensus 140 l~~~~~~a~~~~~i~~NP~~~v~~~~~~~~~ 170 (348) |+++|+||++.|+|+.||+..|+.++..... T Consensus 83 l~~if~~Av~~~~i~~NP~~~v~~~k~~~~~ 113 (118) T 2kj9_A 83 ATAIMRYAVQQKMIRFNPAYDLEGAVQKLEH 113 (118) T ss_dssp HHHHHHHHHHTTSSSSCHHHHCCSCSSSSSS T ss_pred HHHHHHHHHHCCCCCCCCHHHHHHHCCCCCC T ss_conf 9999999998788121848889876689865 No 17 >>2kj8_A Putative prophage CPS-53 integrase; INTS, INTC, YFDB, DNA integration, DNA recombination, structural genomics, protein structure initiative; NMR {Escherichia coli k-12} (A:) Probab=99.46 E-value=2.5e-13 Score=104.69 Aligned_cols=110 Identities=11% Similarity=0.182 Sum_probs=94.3 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-HHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHHHH Q ss_conf 44878999999998355435697889999999999-99995699958969999999887515--9978999999999999 Q gi|254780134|r 67 KPTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQ-IIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMRVL 143 (348) Q Consensus 67 ~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~-~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~~~ 143 (348) ...||.++++.|+.... .+++++|+..|...++. +.+.||+.++.+|+..++++|++.+. .++.+++..++.|+.+ T Consensus 3 ~~~t~~~~~~~~~~~~~-~~~~~~t~~~~~~~~~~~i~~~~g~~~l~~i~~~~i~~~~~~~~~~~s~~t~~~~~~~l~~~ 81 (118) T 2kj8_A 3 NNNSFSAIYKEWYEHKK-QVWSVGYATELAKMFDDDILPIIGGLEIQDIEPMQLLEVIRRFEDRGAMERANKARRRCGEV 81 (118) T ss_dssp STTBHHHHHHHHHHHHT-TTSCHHHHHHHHHHHHHHHHHHHTTSBTTSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH T ss_conf 54559999999999860-41899999999999999978885878099918999999999999839944889999999999 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCC--CCCCCCCHH Q ss_conf 9644552001056651034643244--442116523 Q gi|254780134|r 144 FKWAVRQEYVAINPCLSVERPKRKT--EGIRPWTKE 177 (348) Q Consensus 144 ~~~a~~~~~i~~NP~~~v~~~~~~~--~~~~~~t~~ 177 (348) |+||++.|++..||+.+++.++... +...+++.| T Consensus 82 ~~~A~~~g~i~~NP~~~i~~~~~~~~~~~~~~lt~E 117 (118) T 2kj8_A 82 FRYAIVTGRAKYNPAPDLADAMKGYRKKNLEHHHHH 117 (118) T ss_dssp HHHHHHTTSCSCCSHHHHHHHHHHGGGTSCCSSCSC T ss_pred HHHHHHCCCHHCCCHHHHHHHCCCCCCCCCCCCCCC T ss_conf 999998688300877789863699888777555677 No 18 >>1z19_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 2.80A {Enterobacteria phage lambda} PDB: 1p7d_A* (A:1-93) Probab=99.46 E-value=6.1e-13 Score=102.23 Aligned_cols=91 Identities=21% Similarity=0.227 Sum_probs=86.0 Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHH--CCCHHHHHHHHHHHHHHHHH Q ss_conf 8789999999983554356978899999999999999569995896999999988751--59978999999999999964 Q gi|254780134|r 69 TTLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESR--KHTPSSAIQFLTSMRVLFKW 146 (348) Q Consensus 69 ~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~--~~~~~t~n~~~~~l~~~~~~ 146 (348) .||+++++.|+.....++++++|...|...++++.+.||+.++.+|++.+|+++++.+ ..+++++++.++.|+.+|+| T Consensus 1 ~T~~~~~~~~~~~~~~~~~~~~T~~~y~~~~~~~~~~~g~~~i~~it~~~i~~~~~~~~~~~s~~t~~~~~~~l~~~f~~ 80 (93) T 1z19_A 1 XTLHSWLDRYEKILASRGIKQKTLINYXSKIKAIRRGLPDAPLEDITTKEIAAXLNGYIDEGKAASAKLIRSTLSDAFRE 80 (93) T ss_dssp CBHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHSCSCBGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCC T ss_conf 96999999999999875999999999999999999997699968799999999999998720589999999988887424 Q ss_pred HHHHHHHHHHHHH Q ss_conf 4552001056651 Q gi|254780134|r 147 AVRQEYVAINPCL 159 (348) Q Consensus 147 a~~~~~i~~NP~~ 159 (348) |+++|++..||+. T Consensus 81 a~~~~~i~~NP~a 93 (93) T 1z19_A 81 AIAEGHITTNHVA 93 (93) T ss_dssp HHHTTSCSCCTTT T ss_pred CCHHHHHHHHHCC T ss_conf 4124454221011 No 19 >>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} (A:75-166) Probab=99.45 E-value=8.5e-13 Score=101.28 Aligned_cols=90 Identities=21% Similarity=0.197 Sum_probs=85.6 Q ss_pred CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHHH Q ss_conf 7899999999835543569788999999999999995699958969999999887515--99789999999999999644 Q gi|254780134|r 70 TLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMRVLFKWA 147 (348) Q Consensus 70 Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~~~~~~a 147 (348) ||+++++.|+...+..+++++|...|+..++++.+.+|+.++.+|++.+|+.|++.+. .++++++++++.|+++|+|| T Consensus 1 T~~~~~~~~~~~~~~~~~s~~T~~~y~~~~~~~~~~~g~~~i~~i~~~~i~~~~~~~~~~~s~~t~~~~~~~l~~~~~~a 80 (92) T 1z1b_A 1 TLHSWLDRYEKILASRGIKQKTLINYMSKIKAIRRGLPDAPLEDITTKEIAAMLNGYIDEGKAASAKLIRSTLSDAFREA 80 (92) T ss_dssp BHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHSCSCBGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH T ss_conf 29999999999986457888799999999999999976898788129999999999985137999999999976656421 Q ss_pred HHHHHHHHHHHH Q ss_conf 552001056651 Q gi|254780134|r 148 VRQEYVAINPCL 159 (348) Q Consensus 148 ~~~~~i~~NP~~ 159 (348) ++.|++..||+. T Consensus 81 v~~~~i~~NP~a 92 (92) T 1z1b_A 81 IAEGHITTNHVA 92 (92) T ss_dssp HHTTSCSSCTTT T ss_pred HHCCCCCCCCCC T ss_conf 100123332222 No 20 >>2kj5_A Phage integrase; GFT NMR, PSI-2, NESG, structural genomics, protein structure initiative; NMR {Nitrosospira multiformis atcc 25196} (A:) Probab=99.42 E-value=3.2e-13 Score=104.07 Aligned_cols=104 Identities=17% Similarity=0.229 Sum_probs=92.2 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-HHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHH Q ss_conf 2344878999999998355435697889999999999-99995699958969999999887515--99789999999999 Q gi|254780134|r 65 RKKPTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQ-IIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMR 141 (348) Q Consensus 65 ~~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~-~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~ 141 (348) .....||+++++.|+... ..++++|..+|+..++. +.+.+|+.++.+||+.++++|++.+. .++.+++++++.|+ T Consensus 3 ~~~~~tf~~~~~~~l~~~--~~~~~~t~~~~~~~~~~~i~~~~g~~~i~~it~~~i~~~~~~l~~~~~~~t~~~~~~~l~ 80 (116) T 2kj5_A 3 EKNAYTVAQLADEYFERM--IAGRWKHPNIVRSRIEKDIKPAIGSLKVEDVKPRHIDDVLKAVMKRGAPSIANDTLRWLK 80 (116) T ss_dssp SSSCCBHHHHHHHHHHHH--TTTSCSCHHHHHHHHHHTTSCSGGGSBSSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH T ss_pred CCCCCHHHHHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHCCCCHHHHCHHHHHHHHHHHHHHCCHHHHHHHHHHHH T ss_conf 766552999999999987--467887199999999989799887986787064778999888764023168889999999 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCC Q ss_conf 99964455200105665103464324444 Q gi|254780134|r 142 VLFKWAVRQEYVAINPCLSVERPKRKTEG 170 (348) Q Consensus 142 ~~~~~a~~~~~i~~NP~~~v~~~~~~~~~ 170 (348) ++|+||++.|+++.||+.+|+.++..... T Consensus 81 ~~f~~Av~~~~i~~NP~~~i~~~~~~~~~ 109 (116) T 2kj5_A 81 RMFNYAIKRHIIEYNPAAAFDPGDAGGKL 109 (116) T ss_dssp HHHHHHHHTTSCSSCGGGGSCCCCCCCCC T ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCCCC T ss_conf 99999998789567973469723589731 No 21 >>2a3v_A Site-specific recombinase INTI4; protein-DNA complex, recombination; HET: DNA; 2.80A {Vibrio cholerae o1 biovar eltor str} (A:1-94) Probab=99.20 E-value=8.1e-11 Score=88.40 Aligned_cols=88 Identities=10% Similarity=0.023 Sum_probs=81.3 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHH----CCCHHHHHHHHHHHHHHHHHH Q ss_conf 9999999983554356978899999999999999569995896999999988751----599789999999999999644 Q gi|254780134|r 72 KWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESR----KHTPSSAIQFLTSMRVLFKWA 147 (348) Q Consensus 72 ~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~----~~~~~t~n~~~~~l~~~~~~a 147 (348) .++++.|+.....++++++|+..|+..++.|...+|+.++.+|+..+|..|+..+ +.++.|+|..++.|++||+|+ T Consensus 3 ~~~i~~~l~~l~~~~~s~~Ti~~y~~~l~~f~~~l~~~~~~~i~~~~i~~~~~~l~~~~~~s~~T~~~~l~~lr~f~~~~ 82 (94) T 2a3v_A 3 SQFLLSVREFMQTRYYAKKTIEAYLHWITRYIHFHNKKHPSLMGDKEVEEFLTYLAVQGKVATKTQSLALNSLSFLYKEI 82 (94) T ss_dssp HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHTTSSSCCGGGCCHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH T ss_conf 89999999999984989999999999999999997107944499999999999999838988326999999998887510 Q ss_pred HHHHHHHHHHHH Q ss_conf 552001056651 Q gi|254780134|r 148 VRQEYVAINPCL 159 (348) Q Consensus 148 ~~~~~i~~NP~~ 159 (348) ++.|+++.||++ T Consensus 83 ~~~~~i~~nP~~ 94 (94) T 2a3v_A 83 LKTPLSLEIRFQ 94 (94) T ss_dssp SSCCCCTTCCCC T ss_pred HCCCCCCCCCCH T ss_conf 001245432200 No 22 >>1a0p_A Site-specific recombinase XERD; DNA binding, DNA recombination; 2.50A {Escherichia coli} (A:1-100) Probab=99.15 E-value=1.9e-10 Score=85.98 Aligned_cols=92 Identities=13% Similarity=0.224 Sum_probs=81.9 Q ss_pred HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHC--CCCHHHCCHHHHHHHHHHHC---CCHHHHHHHHHHHHHHH Q ss_conf 89999999983554-35697889999999999999956--99958969999999887515---99789999999999999 Q gi|254780134|r 71 LKWLISEYRKSAHW-GSLAVNSRISFESYFDQIIRKSG--DFDYRKITTKHIRSGVESRK---HTPSSAIQFLTSMRVLF 144 (348) Q Consensus 71 l~~l~~~y~~~~~~-~~l~~~T~~~~~~~~~~~~~~~g--~~~l~~it~~~i~~~~~~~~---~~~~t~n~~~~~l~~~~ 144 (348) +.++++.|+..... ++++++|+..|...+++|...++ ..++.+|+..+|..|+..+. .++.|+|+.++.|+.+| T Consensus 2 l~~~~~~fl~~l~~~~~~s~~T~~~Y~~~l~~f~~~~~~~~~~~~~i~~~~i~~~~~~l~~~~~s~~Ti~~~l~~lr~f~ 81 (100) T 1a0p_A 2 DLARIEQFLDALWLEKNLAENTLNAYRRDLSMMVEWLHHRGLTLATAQSDDLQALLAERLEGGYKATSSARLLSAVRRLF 81 (100) T ss_dssp HHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHHHHTSCCTTTCCHHHHHHHHHSCC-------CHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHH T ss_conf 87999999999999869179999999999999999998749992669999999999997640023321256777765411 Q ss_pred HHHHHHHHHHHHHHHCCC Q ss_conf 644552001056651034 Q gi|254780134|r 145 KWAVRQEYVAINPCLSVE 162 (348) Q Consensus 145 ~~a~~~~~i~~NP~~~v~ 162 (348) +||+++|+++.||+.+|+ T Consensus 82 ~~~~~~~~i~~nP~~~i~ 99 (100) T 1a0p_A 82 QYLYREKFREDDPSAHLA 99 (100) T ss_dssp HHHHHTTSSSSCTTSCC- T ss_pred HHHHHCCCCCCHHHHCCC T ss_conf 333212432210110025 No 23 >>1xo0_A Recombinase CRE; CRE recombinase, holliday junction, recombination,complex (recombinase/DNA), hydrolase, ligase/DNA complex; 2.00A {Enterobacteria phage P1} (A:1-114) Probab=99.13 E-value=1.7e-10 Score=86.36 Aligned_cols=106 Identities=8% Similarity=-0.021 Sum_probs=86.7 Q ss_pred HHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHC--CCCHHHCCHHHHHHHHHHH---CCCHHHHHHHHHHHHHHHH Q ss_conf 9999999983554-35697889999999999999956--9995896999999988751---5997899999999999996 Q gi|254780134|r 72 KWLISEYRKSAHW-GSLAVNSRISFESYFDQIIRKSG--DFDYRKITTKHIRSGVESR---KHTPSSAIQFLTSMRVLFK 145 (348) Q Consensus 72 ~~l~~~y~~~~~~-~~l~~~T~~~~~~~~~~~~~~~g--~~~l~~it~~~i~~~~~~~---~~~~~t~n~~~~~l~~~~~ 145 (348) +++++.|+..... ++++++|+.+|...++.|...++ +.++.+|+..+|.+|+..+ +.+++|+|++++.|+.+|+ T Consensus 2 ~~~~~~fl~~~~~~~~~s~~T~~~Y~~~l~~f~~~l~~~~~~~~~i~~~~i~~y~~~~~~~~~s~~Ti~~~l~~l~~f~~ 81 (114) T 1xo0_A 2 DEVRKNLMDMFRDRQAFSEHTWKMLLSVCRSWAAWCKLNNRKWFPAEPEDVRDYLLYLQARGLAVKTIQQHLGQLNMLHR 81 (114) T ss_dssp HHHHHHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHHHHHTCCCSSCCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH T ss_conf 78999999999975487999999999999999999997499967899999999999998779998999999999988899 Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHH Q ss_conf 445520010566510346432444421165234 Q gi|254780134|r 146 WAVRQEYVAINPCLSVERPKRKTEGIRPWTKED 178 (348) Q Consensus 146 ~a~~~~~i~~NP~~~v~~~~~~~~~~~~~t~~e 178 (348) ||...|++..||+..+.. +.+.....+++.+| T Consensus 82 ~~~~~~~~~~~p~~~v~~-~~~~~~p~~lt~~e 113 (114) T 1xo0_A 82 RSGLPRPSDSNAVSLVMR-RIRKENVDAGERAK 113 (114) T ss_dssp HHTSCCGGGSHHHHHHHH-HHHHHHHHTTCCCC T ss_pred HHHHCCCCCCCCHHHHCC-CCCCCCCCCCCCCC T ss_conf 987315433532444213-32224555452112 No 24 >>2kkp_A Phage integrase; SAM-like domain, alpha-helical bundle, structural genomics, PSI-2, protein structure initiative; NMR {Moorella thermoacetica atcc 39073} (A:27-117) Probab=99.08 E-value=7e-11 Score=88.81 Aligned_cols=85 Identities=15% Similarity=0.204 Sum_probs=74.4 Q ss_pred HHHHHHHHHHHH-HHHHHCCCCHHHCCHHHHHHHHHHH---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 889999999999-9999569995896999999988751---599789999999999999644552001056651034643 Q gi|254780134|r 90 NSRISFESYFDQ-IIRKSGDFDYRKITTKHIRSGVESR---KHTPSSAIQFLTSMRVLFKWAVRQEYVAINPCLSVERPK 165 (348) Q Consensus 90 ~T~~~~~~~~~~-~~~~~g~~~l~~it~~~i~~~~~~~---~~~~~t~n~~~~~l~~~~~~a~~~~~i~~NP~~~v~~~~ 165 (348) +|+..|+..++. +.+.+|+.++.+||..++++|++.+ +.++.|++++++.|+++|+||++.++++.||+..|+.|+ T Consensus 2 ~T~~~y~~~~~~~~~~~~g~~~i~~it~~~i~~~~~~l~~~g~s~~t~~~~~~~l~~~f~~a~~~~~i~~nP~~~i~~pk 81 (91) T 2kkp_A 2 STWESYETVLRLHVIPTLGSIPLKKLQPADIQRLYASKLESGLSPTRVRYIHVVLHEAMSQARESGLLLQNPTEAAKPPR 81 (91) T ss_dssp CCCSHHHHHHHHHHCCCCCTSCTTTCCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHTTTSCSSCGGGGSCCCC T ss_pred CCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHCCCCC T ss_conf 50989999999989999588737667079999999999975877688999999999999999988994419184297899 Q ss_pred CCCCCCCCC Q ss_conf 244442116 Q gi|254780134|r 166 RKTEGIRPW 174 (348) Q Consensus 166 ~~~~~~~~~ 174 (348) ......+++ T Consensus 82 ~~~~~~~~l 90 (91) T 2kkp_A 82 HPLEHHHHH 90 (91) T ss_dssp CCCCCCCCC T ss_pred CCCCCCCCC T ss_conf 986556678 No 25 >>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum} (A:) Probab=91.08 E-value=0.23 Score=26.97 Aligned_cols=73 Identities=10% Similarity=-0.055 Sum_probs=39.7 Q ss_pred CCCCEEEECCCCCEEEEEEE---CCCCEEECCCCCCHHHHHHHHHH------HHCCCCCHHH---HHCCCCCCCCHHHHH Q ss_conf 79818962289938999970---89565755889998899999999------8534310123---102323448789999 Q gi|254780134|r 8 PPFVTKERTRHGKIIYYFRK---GHGRRIRLPYPHESTFIPAYMSA------LTGSTPKREY---INSPRKKPTTLKWLI 75 (348) Q Consensus 8 p~~v~~~~~r~G~~~~~~r~---~~~~~~~~~~~~~~~~~~~~~~a------~~~~~~~~~~---~~~~~~~~~Tl~~l~ 75 (348) .++++-....+|...|+|+. +..+++.++....-...+|...+ ++...+.... .........||.+++ T Consensus 23 ~~GL~l~V~~sG~k~~~~ry~~~Gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~~~G~DP~~~kk~~~~~~~~~~T~~~~~ 102 (108) T 3ju0_A 23 GFGMHLLVHPNGSKYWRLSYRFEKKQRLLALGVYPAVSLADARQRRDEAKKLLAAGIDPSAKKQADNKTIQEKRNNTRLE 102 (108) T ss_dssp ETTEEEEECTTSCEEEEEEEEETTEEEEEEEEEETTSCHHHHHHHHHHHHHHHHTTCCGGGSCGGGSCCHHHHC------ T ss_pred CCCEEEEEECCCCEEEEEEEECCCCEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCEEE T ss_conf 99459998469866889841012411114567888737999999999999999869998999999999999998688631 Q ss_pred HHHHH Q ss_conf 99998 Q gi|254780134|r 76 SEYRK 80 (348) Q Consensus 76 ~~y~~ 80 (348) +.|+. T Consensus 103 ~~~~~ 107 (108) T 3ju0_A 103 HHHHH 107 (108) T ss_dssp ----- T ss_pred CCCCC T ss_conf 01466 No 26 >>1flo_A FLP recombinase; tyrosine recombinase, protein-DNA complex, holliday- junction, domain-swapping, ligase, lyase/DNA complex; 2.65A {Saccharomyces cerevisiae} (A:151-422) Probab=81.71 E-value=2.9 Score=19.74 Aligned_cols=132 Identities=17% Similarity=0.192 Sum_probs=71.1 Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCEEE---E----ECC--CCCCCCCHHHHHH---CCH---HHHH---HHHHHH-CCCCC Q ss_conf 99989898618873100256640144---3----023--3211331024331---121---6899---999642-01332 Q gi|254780134|r 193 RLAFEFLLYSGLRCSDSCRAGVQHLQ---N----NIF--SIKTQKTGTIITV---ELP---DGFM---KLLAMT-PIGKE 253 (348) Q Consensus 193 ~~~~~l~~~TG~R~~Ei~~L~~~did---~----~~i--~~~~~Kt~~~~~v---pl~---~~l~---~~l~~~-~~~~~ 253 (348) +.++.+.++-+||.+|+-.+...-++ + ..+ .++.+||++++.| |+. +.|. .+|... |.... T Consensus 28 ~flll~tf~NCcR~sDLkN~DP~TFeiv~nk~lG~ilra~V~ETKTr~~R~IyFfPv~g~~DpllaL~d~l~~~~P~~Kt 107 (272) T 1flo_A 28 QFLFLATFINCGRFSDIKNVDPKSFKLVQNKYLGVIIQCLVTETKTSVSRHIYFFSARGRIDPLVYLDEFLRNSEPVLKR 107 (272) T ss_dssp HHHHHHHHHHTCCHHHHHTCEEEEEEEECCTTTSCEEEEEECSCTTSCCEEEEECCCSSSCCHHHHHHHHHHHCCCEECC T ss_pred HHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHEEEEEEEECCCCCCEEEEEEEECCCCCCCHHHHHHHHHCCCHHHHH T ss_conf 99999998623542324568805677765201303545765224353012589973267667234498787147388887 Q ss_pred ----CCCCC-CCCCCCCHHHH----HHHHHHHHHHC--CCCCC--CCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHH-- Q ss_conf ----21122-24577587789----99999999983--88998--140269999999984899889999964999899-- Q gi|254780134|r 254 ----TFFIN-NDKQKMNATQF----SIWFKAKATKA--GVNKS--AHGVRKFSATISADAGATAHELMATYGWKTVDQ-- 318 (348) Q Consensus 254 ----~~~~~-~~g~~~~~~~~----~~~~~~~~~~a--gi~~~--~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~-- 318 (348) .--.+ ...-.+-.+++ .+.+.+-.... +|++. .|=-||.-+|.|...+.+ +.+.-+..||+... T Consensus 108 ~srts~~~s~~q~~Qllrdsl~~~YdrFi~k~~~~~iF~I~~GPKSHlGRHLM~SyLs~~~l~-~~~s~~GNWs~~reS~ 186 (272) T 1flo_A 108 VNRTGNSSSNKQEYQLLKDNLVRSYNKALKKNAPYSIFAIKNGPKSHIGRHLMTSFLSMKGLT-ELTNVVGNWSDKRASA 186 (272) T ss_dssp CCBTTCCSCCCCCEESSCTTHHHHHHHHHHHHCSSGGGGSTTCCSTTHHHHHHHHHHHHTTCT-TSHHHHHTCCCC---- T ss_pred HHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHCCHH-HHHHHHCCCCHHHHHH T ss_conf 504688754378899888888999999873179825998537966677889999886121568-8877734642014556 Q ss_pred -H-HHHHHH Q ss_conf -9-999999 Q gi|254780134|r 319 -A-ETYTKG 325 (348) Q Consensus 319 -t-~~Y~~~ 325 (348) + .+|+|. T Consensus 187 VARs~Y~H~ 195 (272) T 1flo_A 187 VARTTYTHQ 195 (272) T ss_dssp ---CCSSCC T ss_pred HHHHEEEEE T ss_conf 643100122 No 27 >>1aih_A HP1 integrase; DNA integration, recombination; 2.50A {Bacteriophage HP1} (A:50-86) Probab=81.07 E-value=0.34 Score=25.83 Aligned_cols=32 Identities=16% Similarity=0.236 Sum_probs=26.2 Q ss_pred EEEEECCCCCCCCCHHHHHHCCHHHHHHHHHH Q ss_conf 14430233211331024331121689999964 Q gi|254780134|r 216 HLQNNIFSIKTQKTGTIITVELPDGFMKLLAM 247 (348) Q Consensus 216 did~~~i~~~~~Kt~~~~~vpl~~~l~~~l~~ 247 (348) +|-.+.|++..+|+++.+.|||+++|.+.|.. T Consensus 2 Qi~~~kiTF~~TK~kKnRtVPIS~eL~~el~~ 33 (37) T 1aih_A 2 QVMPYKITFTNTKSKKNRTVPISDELFDMLPK 33 (37) T ss_dssp TEETTEEEEESSSSSCEEEEECCHHHHHHSCC T ss_pred CCCCCHHEECCCCCCCCHHHHHHHHHHHHHHH T ss_conf 34310000013445431377668999999876 No 28 >>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} (A:1-59) Probab=77.34 E-value=3.1 Score=19.59 Aligned_cols=35 Identities=20% Similarity=0.348 Sum_probs=22.9 Q ss_pred CCCCCCCEEEECCCCCEEEEEE-ECCCCEEECCCCCCHHH Q ss_conf 8887981896228993899997-08956575588999889 Q gi|254780134|r 5 LRLPPFVTKERTRHGKIIYYFR-KGHGRRIRLPYPHESTF 43 (348) Q Consensus 5 ~~~p~~v~~~~~r~G~~~~~~r-~~~~~~~~~~~~~~~~~ 43 (348) ..+||+++++++ + ||+|+ ...|+...++.....+. T Consensus 10 ~~lp~NLy~k~~---k-Y~~Yr~P~tGk~~~LG~d~~~A~ 45 (59) T 1z1b_A 10 RDLPPNLYIRNN---G-YYCYRDPRTGKEFGLGRDRRIAI 45 (59) T ss_dssp CCCCTTEEEETT---T-EEEEECTTTCCEEEEESCHHHHH T ss_pred CCCCCCEEECCC---E-EEEEEECCCCEEEECCCCHHHHH T ss_conf 899985897399---8-99999789997986889989999 No 29 >>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} (A:) Probab=49.15 E-value=14 Score=15.37 Aligned_cols=44 Identities=16% Similarity=0.058 Sum_probs=27.5 Q ss_pred CCCCEEEECCCCCEEEEEEE---CCCCEEECCCCCCHHHHHHHHHHH Q ss_conf 79818962289938999970---895657558899988999999998 Q gi|254780134|r 8 PPFVTKERTRHGKIIYYFRK---GHGRRIRLPYPHESTFIPAYMSAL 51 (348) Q Consensus 8 p~~v~~~~~r~G~~~~~~r~---~~~~~~~~~~~~~~~~~~~~~~a~ 51 (348) -++++-....+|+..|+|+. +..+++.++....-...+|...|. T Consensus 23 ~~GL~l~v~~~G~k~~~~ry~~~Gk~~~~~lG~~p~~sl~~AR~~A~ 69 (88) T 3jtz_A 23 SHGLYLLVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQRE 69 (88) T ss_dssp STTEEEEECTTSCEEEEEEEEETTEEEEEEEEETTTSCHHHHHHHHH T ss_pred CCCEEEEEECCCCEEEEEEEEECCCEEEEEECCCCCCCHHHHHHHHH T ss_conf 99659999658876899999863716899826999847999999999 No 30 >>2k8e_A UPF0339 protein YEGP; protein structure initiative (PSI), northeast structural genomics consortium (NESG); NMR {Escherichia coli K12} (A:) Probab=34.99 E-value=17 Score=14.79 Aligned_cols=39 Identities=10% Similarity=0.175 Sum_probs=27.1 Q ss_pred CCCCEEEECCCCCEEEEEEECCCCEEECCCCC-CHHHHHH Q ss_conf 79818962289938999970895657558899-9889999 Q gi|254780134|r 8 PPFVTKERTRHGKIIYYFRKGHGRRIRLPYPH-ESTFIPA 46 (348) Q Consensus 8 p~~v~~~~~r~G~~~~~~r~~~~~~~~~~~~~-~~~~~~~ 46 (348) ..+...++..+|.|+|++.-.+|..+-....+ +++.+.. T Consensus 18 ~~~Fei~~~~~g~~rfrL~a~ng~iia~S~~Y~s~~~a~~ 57 (130) T 2k8e_A 18 AGWFELSKSSDNQFRFVLKAGNGETILTSELYTSKTSAEK 57 (130) T ss_dssp CCEEEEEECTTCCEEEEEECTTSCEEEECCCBSSHHHHHH T ss_pred EEEEEEEECCCCCEEEEEECCCCCEEEECCCCCCHHHHHH T ss_conf 4689999868997999999299999986799688899999 No 31 >>2com_A Lysine-specific histone demethylase 1; swirm domain, LSD1, AOF2, KIAA0601, histone modulation, structural genomics, NPPSFA; NMR {Homo sapiens} (A:40-124) Probab=33.48 E-value=24 Score=13.80 Aligned_cols=66 Identities=8% Similarity=-0.012 Sum_probs=47.7 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 788999999999999995699958969999999887515997899999999999996445520010566510 Q gi|254780134|r 89 VNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRKHTPSSAIQFLTSMRVLFKWAVRQEYVAINPCLS 160 (348) Q Consensus 89 ~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~~~~~t~n~~~~~l~~~~~~a~~~~~i~~NP~~~ 160 (348) ..|...|...=+.++..|-.-|-..+|..++...+.....+ .+..+..++.|...+|+|.-..... T Consensus 4 ~kt~~~Yl~iRN~Il~~w~~np~~~Lt~~~~~~~l~~~~~~------d~~~i~rv~~FL~~~G~INfg~~~~ 69 (85) T 2com_A 4 QQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNS------DTVLVHRVHSYLERHGLINFGIYKR 69 (85) T ss_dssp HHHHHHHHHHHHHHHHHHHHSTTSCCCHHHHHHHSCTTTTT------CHHHHHHHHHHHHHTTSSSCSSSCC T ss_pred CCCHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHCCCCCCC------CHHHHHHHHHHHHHCCCEEECCCCC T ss_conf 97889999999999999981987266299999764554334------6999999999999829331067777 No 32 >>2nu8_B SCS-beta, succinyl-COA synthetase beta chain; citric acid cycle, heterotetramer, ligase, ATP-grAsp fold, rossmann fold; HET: COA; 2.15A {Escherichia coli} (B:1-18,B:104-237) Probab=31.14 E-value=26 Score=13.56 Aligned_cols=53 Identities=13% Similarity=0.010 Sum_probs=41.0 Q ss_pred CHHHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHCCC Q ss_conf 958969999999887515997899999999999996445520--01056651034 Q gi|254780134|r 110 DYRKITTKHIRSGVESRKHTPSSAIQFLTSMRVLFKWAVRQE--YVAINPCLSVE 162 (348) Q Consensus 110 ~l~~it~~~i~~~~~~~~~~~~t~n~~~~~l~~~~~~a~~~~--~i~~NP~~~v~ 162 (348) +...++...+.+....++..+.........|..+++-.++.+ +++-||....+ T Consensus 66 ~~~g~~~~~~r~~~~~lgl~~~~~~~~~~~i~~Ly~~f~e~da~llEINPL~~t~ 120 (152) T 2nu8_B 66 PLTGPMPYQGRELAFKLGLEGKLVQQFTKIFMGLATIFLERDLALIEINPLVITK 120 (152) T ss_dssp TTTBCCHHHHHHHHHHTTCCTHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEET T ss_pred CCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEHEECC T ss_conf 5445666778999985268616788999999999999985564367620010337 No 33 >>2fp4_B Succinyl-COA ligase [GDP-forming] beta-chain, mitochondrial; active site phosphohistidine residue; HET: NEP GTP; 2.08A {Sus scrofa} (B:1-18,B:110-243) Probab=31.12 E-value=26 Score=13.55 Aligned_cols=53 Identities=13% Similarity=0.107 Sum_probs=41.5 Q ss_pred CHHHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHCCC Q ss_conf 958969999999887515997899999999999996445520--01056651034 Q gi|254780134|r 110 DYRKITTKHIRSGVESRKHTPSSAIQFLTSMRVLFKWAVRQE--YVAINPCLSVE 162 (348) Q Consensus 110 ~l~~it~~~i~~~~~~~~~~~~t~n~~~~~l~~~~~~a~~~~--~i~~NP~~~v~ 162 (348) |...++...+.+....++......+.....+..+|+-.++.+ +++.||....+ T Consensus 67 p~~g~~~~~~~~i~~~lgl~~~~~~~~~~ii~~Ly~~F~e~Da~llEINPLv~t~ 121 (152) T 2fp4_B 67 IIEGIKDSQAQRMAENLGFLGPLQNQAADQIKKLYNLFLKIDATQVEVNPFGETP 121 (152) T ss_dssp TTTCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEEECT T ss_pred CCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEECC T ss_conf 3322353267899985078620046889999999999985681205432379938 No 34 >>2o5r_A Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, glutamate- tRNA ligase 1, glurs 1, structural genomics; 2.34A {Thermotoga maritima} (A:389-481) Probab=30.93 E-value=26 Score=13.53 Aligned_cols=50 Identities=14% Similarity=0.223 Sum_probs=39.4 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCC--CCCHHHHHHHHHHHHCCCCHHHHHHHHCC Q ss_conf 77587789999999999838899--81402699999999848998899999649 Q gi|254780134|r 262 QKMNATQFSIWFKAKATKAGVNK--SAHGVRKFSATISADAGATAHELMATYGW 313 (348) Q Consensus 262 ~~~~~~~~~~~~~~~~~~agi~~--~~H~lRht~at~l~~~G~~~~~i~~~lGH 313 (348) -.++.+.+...++..++..|+.. -++-||- |..-...|-++..++.+||- T Consensus 29 ~~~~~e~i~~~i~~~~~~~~~k~~~~~~~lR~--altG~~~GP~l~~~l~ilGk 80 (93) T 2o5r_A 29 VRWTXEEITPVFKKVLKQHGVKPKEFYXTLRR--VLTGREEGPELVNIIPLLGK 80 (93) T ss_dssp SCSSHHHHHHHHHHHHHHHTCCHHHHHHHHHH--HHTSSSCCSCHHHHHHHSCH T ss_pred CCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHH--HHHCCCCCCCHHHHHHHHCH T ss_conf 99999999999999999959798899999999--99598919199999999099 No 35 >>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} (C:) Probab=30.41 E-value=27 Score=13.48 Aligned_cols=33 Identities=15% Similarity=0.179 Sum_probs=25.7 Q ss_pred HHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 9999999848998899999649998999999999 Q gi|254780134|r 292 FSATISADAGATAHELMATYGWKTVDQAETYTKG 325 (348) Q Consensus 292 t~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~ 325 (348) -.+-.|.++|.++.+|+..+| -|..|.-+|... T Consensus 12 ~~a~~l~~~G~s~~~iA~~~g-VSr~TiYr~l~~ 44 (52) T 1jko_C 12 EQISRLLEKGHPRQQLAIIFG-IGVSTLYRYFPA 44 (52) T ss_dssp HHHHHHHHTTCCHHHHHHTTS-CCHHHHHHHSCT T ss_pred HHHHHHHHCCCCHHHHHHHHC-CCHHHHHHHCCC T ss_conf 999999987998999999989-799999998452 No 36 >>2ysf_A E3 ubiquitin-protein ligase itchy homolog; AIP4, NAPP1, WW domain, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Probab=26.59 E-value=31 Score=13.05 Aligned_cols=25 Identities=20% Similarity=-0.021 Sum_probs=20.4 Q ss_pred CCCCCCCCCCCEEEECCCCCEEEEE Q ss_conf 9988888798189622899389999 Q gi|254780134|r 1 MTPSLRLPPFVTKERTRHGKIIYYF 25 (348) Q Consensus 1 m~p~~~~p~~v~~~~~r~G~~~~~~ 25 (348) |.+...||++=....+..|+.||.- T Consensus 2 ~~~~~~LP~GWe~~~~~~G~~Yyin 26 (40) T 2ysf_A 2 SSGSSGLPEGWEMRFTVDGIPYFVD 26 (40) T ss_dssp CCCCCCCCSSEEEEECTTCCEEEEE T ss_pred CCCCCCCCCCCEEEECCCCCEEEEE T ss_conf 8887989989268898999999887 No 37 >>1irx_A Lysyl-tRNA synthetase; beta sandwitch, zinc-binding structure, rossmann fold, alpha-helix CAGE; 2.60A {Pyrococcus horikoshii} (A:434-523) Probab=25.88 E-value=32 Score=12.97 Aligned_cols=49 Identities=12% Similarity=0.239 Sum_probs=38.7 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCC--CCCHHHHHHHHHHHHCCCCHHHHHHHHC Q ss_conf 77587789999999999838899--8140269999999984899889999964 Q gi|254780134|r 262 QKMNATQFSIWFKAKATKAGVNK--SAHGVRKFSATISADAGATAHELMATYG 312 (348) Q Consensus 262 ~~~~~~~~~~~~~~~~~~agi~~--~~H~lRht~at~l~~~G~~~~~i~~~lG 312 (348) ..++.+.+...++..++..|++. -++-||. +..-...|.++..++.+|| T Consensus 28 ~~~~~e~i~~~i~~~~~~~~~k~~~~~~~lR~--altG~~~GP~l~~~l~lLG 78 (90) T 1irx_A 28 EEFSVEEFNNILFEVAKRRGISSREWFSTLYR--LFIGKERGPRLASFLASLD 78 (90) T ss_dssp SSCCHHHHHHHHHHHHHHHTCBHHHHHHHHHH--HHHSSSSCSCHHHHHHTSC T ss_pred CCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHH--HHCCCCCCCCHHHHHHHHC T ss_conf 89999999999999999959798999999999--9919798989899999959 No 38 >>1vz0_A PARB, chromosome partitioning protein PARB; nuclear protein, chromosome segregation, DNA-binding, helix-turn-helix; 2.3A {Thermus thermophilus} (A:100-158) Probab=25.81 E-value=32 Score=12.96 Aligned_cols=30 Identities=17% Similarity=0.147 Sum_probs=22.3 Q ss_pred HHHHHHHCCCCHHHHHHHHCCCCHHHHHHHH Q ss_conf 9999998489988999996499989999999 Q gi|254780134|r 293 SATISADAGATAHELMATYGWKTVDQAETYT 323 (348) Q Consensus 293 ~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~ 323 (348) +...|.+.|.+..+|++.+| .|..+..+|. T Consensus 27 a~~~l~~~g~s~~~iA~~~G-~s~~~V~~~L 56 (59) T 1vz0_A 27 GYQALLEMGLTQEEVARRVG-KARSTVANAL 56 (59) T ss_dssp HHHHHHHTTCCHHHHHHHHT-CCHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHCC-CCHHHHHHHH T ss_conf 99989998872999998759-9999985677 No 39 >>1tk7_A CG4244-PB; WW domain, notch, signaling protein; NMR {Drosophila melanogaster} (A:51-88) Probab=25.54 E-value=33 Score=12.95 Aligned_cols=23 Identities=22% Similarity=0.186 Sum_probs=18.2 Q ss_pred CCCCCCCCCCEEEECCCCCEEEE Q ss_conf 98888879818962289938999 Q gi|254780134|r 2 TPSLRLPPFVTKERTRHGKIIYY 24 (348) Q Consensus 2 ~p~~~~p~~v~~~~~r~G~~~~~ 24 (348) .+...||++=....+..|++||. T Consensus 2 ~~~~~LP~GWe~~~~~~G~~Yyi 24 (38) T 1tk7_A 2 INEGPLPPGWEIRYTAAGERFFV 24 (38) T ss_dssp HHSCSSCSSCEEEEETTTEEEEE T ss_pred CCCCCCCCCEEEEECCCCCEEEE T ss_conf 12245563307999888984889 No 40 >>1r71_A Transcriptional repressor protein KORB; INCP, plasmid partitioning, protein-DNA complex, heilx-turn- helix motif, transcription factor; HET: BRU; 2.20A {Escherichia coli} (A:1-76) Probab=25.54 E-value=33 Score=12.93 Aligned_cols=33 Identities=9% Similarity=-0.043 Sum_probs=24.9 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHH Q ss_conf 6999999998489988999996499989999999 Q gi|254780134|r 290 RKFSATISADAGATAHELMATYGWKTVDQAETYT 323 (348) Q Consensus 290 Rht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~ 323 (348) +..+...|.+.|.+..+|++.+| .|.....+|. T Consensus 41 ~a~~~~~l~~~g~s~~~iA~~lg-~s~~~V~~~l 73 (76) T 1r71_A 41 IADFIGRELAKGKKKGDIAKEIG-KSPAFITQHV 73 (76) T ss_dssp HHHHHHHHHHTTCCHHHHHHHHT-CCHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHC-CCHHHHHHHH T ss_conf 99999999983898999999988-8999999999 No 41 >>1hmj_A RPB5, protein (subunit H); RNA polymerase, archaea; NMR {Methanocaldococcus jannaschii} (A:) Probab=24.31 E-value=30 Score=13.22 Aligned_cols=47 Identities=13% Similarity=0.041 Sum_probs=30.8 Q ss_pred CCCCCCHHHHHHHHHHHCCCCHHHHHH----HHHHHCCCCCCCCCCCCCCE Q ss_conf 421165234456666403780899998----98986188731002566401 Q gi|254780134|r 170 GIRPWTKEDMQQFKSFWSEGSQPRLAF----EFLLYSGLRCSDSCRAGVQH 216 (348) Q Consensus 170 ~~~~~t~~ei~~~~~~~~~~~~~~~~~----~l~~~TG~R~~Ei~~L~~~d 216 (348) .+.+++++|...+++.......+--.+ -++-|.|+..|+++.+.... T Consensus 11 kH~ils~eE~~~lL~~y~i~~~qLPkI~~~DPv~r~~G~k~GdVvkI~R~S 61 (78) T 1hmj_A 11 KHEIVPKEEVEEILKRYNIKIQQLPKIYEDDPVIQEIGAKEGDVVRVIRKS 61 (78) T ss_pred CEEECCHHHHHHHHHHHCCCHHHCCEECCCCHHHHHHCCCCCEEEEEEECC T ss_conf 818869999999999969998889924262987886477999089999728 No 42 >>2ysh_A GAS-7, growth-arrest-specific protein 7; WW domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} (A:) Probab=23.17 E-value=36 Score=12.64 Aligned_cols=24 Identities=25% Similarity=0.264 Sum_probs=19.7 Q ss_pred CCCCCCCCCCCEEEECCCCCEEEE Q ss_conf 998888879818962289938999 Q gi|254780134|r 1 MTPSLRLPPFVTKERTRHGKIIYY 24 (348) Q Consensus 1 m~p~~~~p~~v~~~~~r~G~~~~~ 24 (348) |.....||++=....+..|++||+ T Consensus 2 ~~~~~~LP~gWe~~~~~~G~~YY~ 25 (40) T 2ysh_A 2 SSGSSGLPPGWQSYLSPQGRRYYV 25 (40) T ss_dssp CCCCSSCCTTCEEEECTTSCEEEE T ss_pred CCCCCCCCCCCEEEECCCCCEEEE T ss_conf 887688997847989899999989 No 43 >>1j09_A Glutamyl-tRNA synthetase; glurs-ATP-Glu complex, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; HET: GLU ATP; 1.80A {Thermus thermophilus} (A:369-468) Probab=22.99 E-value=37 Score=12.62 Aligned_cols=50 Identities=18% Similarity=0.223 Sum_probs=39.8 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCC--CCCHHHHHHHHHHHHCCCCHHHHHHHHCC Q ss_conf 77587789999999999838899--81402699999999848998899999649 Q gi|254780134|r 262 QKMNATQFSIWFKAKATKAGVNK--SAHGVRKFSATISADAGATAHELMATYGW 313 (348) Q Consensus 262 ~~~~~~~~~~~~~~~~~~agi~~--~~H~lRht~at~l~~~G~~~~~i~~~lGH 313 (348) ..++.+.+...++...+..|+.. -+|-||- |..-...|-++..++.+||- T Consensus 37 ~~~~~~~i~~~i~~i~~~~~~k~~~~~~~LR~--altG~~~GP~l~~~~~~lGk 88 (100) T 1j09_A 37 EEWTEAALEALLRGFAAEKGVKLGQVAQPLRA--ALTGSLETPGLFEILALLGK 88 (100) T ss_dssp CCCSHHHHHHHHHHHHHHHTSCHHHHHHHHHH--HHHSCSCCSCHHHHHHHTCH T ss_pred CCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHH--HHHCCCCCCCHHHHHHHCCH T ss_conf 87999999999999999959899999999999--99498939499999998098 No 44 >>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} (A:) Probab=22.34 E-value=38 Score=12.53 Aligned_cols=37 Identities=19% Similarity=0.141 Sum_probs=28.3 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 69999999984899889999964999899999999998 Q gi|254780134|r 290 RKFSATISADAGATAHELMATYGWKTVDQAETYTKGAD 327 (348) Q Consensus 290 Rht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~~ 327 (348) |-.-.-.+.-.|.+..+|+..|| -|..|+..|.+.+- T Consensus 2 RE~evl~~~~~G~s~~eIA~~l~-iS~~TV~~~~~~i~ 38 (61) T 2jpc_A 2 RERQVLKLIDEGYTNHGISEKLH-ISIKTVETHRMNMM 38 (61) T ss_dssp HHHHHHHHHHTSCCSHHHHHHTC-SCHHHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHC-CCHHHHHHHHHHHH T ss_conf 79999999982799999998969-88999999999999 No 45 >>1ymz_A CC45; artificial protein, computational design, unknown function; NMR {Synthetic} (A:) Probab=21.28 E-value=40 Score=12.40 Aligned_cols=25 Identities=28% Similarity=0.473 Sum_probs=19.4 Q ss_pred CCCCCCCCCCCEEEECCCCCEEEEE Q ss_conf 9988888798189622899389999 Q gi|254780134|r 1 MTPSLRLPPFVTKERTRHGKIIYYF 25 (348) Q Consensus 1 m~p~~~~p~~v~~~~~r~G~~~~~~ 25 (348) |.....||++=....+..|++||+- T Consensus 3 ~~~~~~LP~GWe~~~~~~G~~YYin 27 (43) T 1ymz_A 3 HGRSMPLPPGWERRTDVEGKVYYFN 27 (43) T ss_dssp ----CCCCSSEEEEECTTSCEEEEE T ss_pred CCCCCCCCCCCEEEECCCCCEEEEE T ss_conf 8868988998789798999999897 No 46 >>2auw_A Hypothetical protein NE0471; alpha-beta structure, structural genomics, PSI, protein structure initiative; 1.85A {Nitrosomonas europaea} (A:90-170) Probab=20.73 E-value=41 Score=12.32 Aligned_cols=32 Identities=6% Similarity=0.024 Sum_probs=18.8 Q ss_pred HHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHH Q ss_conf 999999984899889999964999899999999 Q gi|254780134|r 292 FSATISADAGATAHELMATYGWKTVDQAETYTK 324 (348) Q Consensus 292 t~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~ 324 (348) .|..++...|.+..+.++.|| -+-.|...|-. T Consensus 5 ~F~~W~~r~gLsl~~AAeALG-isrRmi~YY~~ 36 (81) T 2auw_A 5 XFGDWXHRNNLSLTTAAEALG-ISRRXVSYYRT 36 (81) T ss_dssp HHHHHHHHTTCCHHHHHHHHT-SCHHHHHHHHT T ss_pred HHHHHHHHCCCCHHHHHHHHC-CCHHHHHHHHC T ss_conf 999999985999999999949-99999999977 No 47 >>3c57_A Two component transcriptional regulatory protein DEVR; response regulator, two-component regulatory system, DNA- binding protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A (A:) Probab=20.64 E-value=41 Score=12.31 Aligned_cols=36 Identities=8% Similarity=0.020 Sum_probs=24.4 Q ss_pred HHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHH Q ss_conf 6999999998489988999996499989999999999 Q gi|254780134|r 290 RKFSATISADAGATAHELMATYGWKTVDQAETYTKGA 326 (348) Q Consensus 290 Rht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~ 326 (348) |-.-.-.+.-.|.+..+|+..|| -|..|+..|.+.+ T Consensus 31 rE~~vl~ll~~G~s~~eIA~~L~-iS~~TV~~~~~~i 66 (95) T 3c57_A 31 QERTLLGLLSEGLTNKQIADRMF-LAEKTVKNYVSRL 66 (95) T ss_dssp HHHHHHHHHHTTCCHHHHHHHHT-CCHHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHC-CCHHHHHHHHHHH T ss_conf 99999999991798799848856-6888999999999 Done!