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 23785 Date Sun May 22 18:44:00 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780134.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1z1b_A Integrase; protein-DNA 100.0 0 0 315.5 25.7 316 4-325 9-345 (356) 2 1z19_A Integrase; protein-DNA 100.0 1.8E-40 7E-45 280.3 20.8 255 69-325 1-272 (283) 3 1a0p_A Site-specific recombina 100.0 2.4E-33 1E-37 233.9 16.3 253 74-327 5-282 (290) 4 2a3v_A Site-specific recombina 100.0 7.5E-33 3.2E-37 230.7 15.1 258 73-340 7-318 (320) 5 1xo0_A Recombinase CRE; CRE re 100.0 9.8E-27 4.1E-31 190.9 18.5 256 71-328 4-311 (324) 6 3nkh_A Integrase; alpha-fold, 99.9 2.7E-24 1.1E-28 175.1 14.0 184 158-343 8-242 (244) 7 1aih_A HP1 integrase; DNA inte 99.9 2.6E-24 1.1E-28 175.2 7.6 146 170-326 3-152 (170) 8 1ae9_A Lambda integrase; DNA r 99.8 7.3E-21 3.1E-25 152.7 9.9 152 172-324 2-168 (179) 9 2kob_A Uncharacterized protein 99.6 1.8E-15 7.8E-20 117.6 10.2 104 68-171 1-104 (108) 10 2oxo_A Integrase; DNA-binding 99.6 7.2E-15 3E-19 113.7 9.2 99 69-167 1-101 (103) 11 2kiw_A INT protein; alpha, str 99.6 4E-14 1.7E-18 108.9 11.0 98 70-168 1-100 (111) 12 2khq_A Integrase; all-alpha, s 99.5 6.9E-14 2.9E-18 107.4 11.3 98 69-166 2-101 (110) 13 3lys_A Prophage PI2 protein 01 99.5 1.4E-13 5.8E-18 105.4 10.2 97 68-164 5-103 (112) 14 2kd1_A DNA integration/recombi 99.5 4E-13 1.7E-17 102.4 9.7 104 67-171 4-111 (118) 15 2kkp_A Phage integrase; SAM-li 99.4 1.3E-13 5.3E-18 105.7 6.4 104 67-170 5-112 (117) 16 2kj9_A Integrase; DNA_BRE_C su 99.4 1.5E-12 6.1E-17 98.8 8.1 100 66-167 8-110 (118) 17 3nrw_A Phage integrase/site-sp 99.4 9.7E-12 4.1E-16 93.4 11.9 101 66-167 4-110 (117) 18 2kj8_A Putative prophage CPS-5 99.3 5.8E-12 2.4E-16 94.9 9.3 94 68-162 4-100 (118) 19 2kkv_A Integrase; protein stru 99.3 2.2E-12 9.3E-17 97.6 6.3 97 65-163 3-102 (121) 20 2kj5_A Phage integrase; GFT NM 99.3 3.8E-12 1.6E-16 96.1 6.5 103 65-169 3-108 (116) 21 2key_A Putative phage integras 99.2 2E-11 8.6E-16 91.3 7.5 95 68-163 7-105 (112) 22 2khv_A Phage integrase; soluti 99.2 7.7E-11 3.3E-15 87.5 7.4 91 69-159 1-94 (106) 23 2v6e_A Protelemorase; hairpin 97.3 0.00019 7.8E-09 46.0 4.2 133 191-323 281-446 (558) 24 3m4a_A Putative type I topoiso 96.1 0.014 6E-07 33.8 6.3 127 194-324 126-291 (346) 25 2h7g_X DNA topoisomerase 1; ty 91.5 0.33 1.4E-05 24.9 5.5 121 195-325 120-277 (314) 26 2b9s_A Topoisomerase I-like pr 81.3 2.1 9E-05 19.6 6.9 96 195-299 280-395 (432) 27 1flo_A FLP recombinase; tyrosi 77.1 2.9 0.00012 18.8 7.2 230 77-317 41-333 (422) 28 3jtz_A Integrase; four strande 34.7 16 0.00068 13.9 3.7 42 9-50 24-68 (88) 29 2bdd_A ACP-synthase; structura 34.0 17 0.0007 13.9 3.2 47 198-250 96-142 (182) 30 1hmj_A RPB5, protein (subunit 32.2 13 0.00054 14.6 1.1 45 171-216 12-61 (78) 31 2x48_A CAG38821; archeal virus 31.4 18 0.00077 13.6 4.7 35 287-323 18-52 (55) 32 2qg8_A Acyl carrier protein sy 27.7 21 0.00089 13.2 4.2 46 199-250 78-123 (163) 33 1jko_C HIN recombinase, DNA-in 25.0 24 0.00099 12.9 3.7 31 293-324 13-43 (52) 34 1dzf_A DNA-directed RNA polyme 24.5 9.4 0.00039 15.5 -0.7 45 171-216 153-202 (215) 35 2waq_H DNA-directed RNA polyme 23.2 11 0.00045 15.1 -0.6 45 171-216 20-69 (84) 36 3ju0_A Phage integrase; four s 22.6 26 0.0011 12.6 3.3 43 9-51 24-69 (108) 37 3h0g_E DNA-directed RNA polyme 22.2 11 0.00047 15.0 -0.7 47 170-216 147-197 (210) 38 1e0m_A Wwprototype; SH3 protot 21.5 28 0.0012 12.4 3.2 20 5-24 2-21 (37) No 1 >1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} SCOP: d.10.1.4 d.163.1.1 PDB: 1z1g_A 1kjk_A 2wcc_3* Probab=100.00 E-value=0 Score=315.49 Aligned_cols=316 Identities=18% Similarity=0.239 Sum_probs=245.6 Q ss_pred CCCCCCCCEEEECCCCCEEEEEE-ECCCCEEECCCCCCHHHHHHHH---HHHHCCCCCHHHHHCCCCCCCCHHHHHHHHH Q ss_conf 88887981896228993899997-0895657558899988999999---9985343101231023234487899999999 Q gi|254780134|r 4 SLRLPPFVTKERTRHGKIIYYFR-KGHGRRIRLPYPHESTFIPAYM---SALTGSTPKREYINSPRKKPTTLKWLISEYR 79 (348) Q Consensus 4 ~~~~p~~v~~~~~r~G~~~~~~r-~~~~~~~~~~~~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~Tl~~l~~~y~ 79 (348) ++.+||++++.. +| +|+|+ ...|+.+.++.........+.. .....................||.++++.|+ T Consensus 9 ~~~~P~~~y~r~--~g--~~~~r~~~~gk~~~lg~~~~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~ 84 (356) T 1z1b_A 9 RRDLPPNLYIRN--NG--YYCYRDPRTGKEFGLGRDRRIAITEAIQANIELFSGHKHKPLTARINSDNSVTLHSWLDRYE 84 (356) T ss_dssp CCCCCTTEEEET--TT--EEEEECTTTCCEEEEESCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHSCBHHHHHHHHH T ss_pred CCCCCCCEEEEC--CE--EEEEEECCCCEEEECCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHHHH T ss_conf 889999889739--98--99999789997986899999999999999999986744035566532455752999999999 Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 835543569788999999999999995699958969999999887515--997899999999999996445520010566 Q gi|254780134|r 80 KSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMRVLFKWAVRQEYVAINP 157 (348) Q Consensus 80 ~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~~~~~~a~~~~~i~~NP 157 (348) .......++++|+.+|...+++|.+.||+.++.+|+..+|.+|++.+. .++.|+|++++.|+++|+||++.+++..|| T Consensus 85 ~~~~~~~~~~~T~~~y~~~~~~l~~~~g~~~l~~it~~~i~~~~~~~~~~~~~~t~~~~~~~l~~~~~~a~~~~~~~~np 164 (356) T 1z1b_A 85 KILASRGIKQKTLINYMSKIKAIRRGLPDAPLEDITTKEIAAMLNGYIDEGKAASAKLIRSTLSDAFREAIAEGHITTNH 164 (356) T ss_dssp HHHHTTTCCHHHHHHHHHHHHHHHHHSCSCBGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTTSCSSCT T ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 99886599999999999999999999769996878999999999999984999999999999999999999851212481 Q ss_pred HHCCCCCCCCCCCCCCCCHHHHHHHHHHHCCC-CHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHC Q ss_conf 51034643244442116523445666640378-08999989898618873100256640144302332113310243311 Q gi|254780134|r 158 CLSVERPKRKTEGIRPWTKEDMQQFKSFWSEG-SQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVE 236 (348) Q Consensus 158 ~~~v~~~~~~~~~~~~~t~~ei~~~~~~~~~~-~~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vp 236 (348) +..++.++.+... ..++.+|+..|++.+... ...++++.|+++||||.+|+++|+|+|||++.+.+..+|++....+| T Consensus 165 ~~~~~~~~~~~~~-~~lt~~E~~~l~~~~~~~~~~~~~~~~l~~~tG~R~~Ei~~L~~~di~~~~~~i~~~K~~~~~~~p 243 (356) T 1z1b_A 165 VAATRAAKSKVRR-SRLTADEYLKIYQAAESSPCWLRLAMELAVVTGQRVGDLCEMKWSDIVDGYLYVEQSKTGVKIAIP 243 (356) T ss_dssp TTTSCCCCCCCCB-CCCCHHHHHHHHHHTTSSCHHHHHHHHHHHHHCCCHHHHTTCBGGGEETTEEEEECTTTCCEEEEE T ss_pred HHHHHCCCCCCCC-CCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHCCCHHHHCCCCEEEEECCCCCEEEEC T ss_conf 5432012235778-768989987875201247657899999999968785457509299922464599988888424602 Q ss_pred CH-------HHHHHHHHHHC--CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC-----CCCCHHHHHHHHHHHHCCC Q ss_conf 21-------68999996420--1332211222457758778999999999983889-----9814026999999998489 Q gi|254780134|r 237 LP-------DGFMKLLAMTP--IGKETFFINNDKQKMNATQFSIWFKAKATKAGVN-----KSAHGVRKFSATISADAGA 302 (348) Q Consensus 237 l~-------~~l~~~l~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~-----~~~H~lRht~at~l~~~G~ 302 (348) +. ..+.+.+.... ..+..+|++..|+|++.++++..|+++|+.+|++ .++|+|||+ ||.+.++|+ T Consensus 244 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~g~~~~~~~~t~H~lRh~-a~~l~~~g~ 322 (356) T 1z1b_A 244 TALHIDALGISMKETLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSFEGDPPTFHELRSL-SARLYEKQI 322 (356) T ss_dssp TTCEETTTTEEHHHHHHHHHHHTCSSBSSCCTTSCCCCHHHHHHHHHHHHHHHTCCCSSBCCCTTHHHHH-HHHHHHHHT T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHH-HHHHHHCCC T ss_conf 7187899999999999864401577650011346667778999999999998599988899975868999-999998699 Q ss_pred CHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 98899999649998999999999 Q gi|254780134|r 303 TAHELMATYGWKTVDQAETYTKG 325 (348) Q Consensus 303 ~~~~i~~~lGHss~~~t~~Y~~~ 325 (348) ++.+|+++|||+|..||++|.+. T Consensus 323 ~~~~i~~~lGH~~~~~t~~Y~~~ 345 (356) T 1z1b_A 323 SDKFAQHLLGHKSDTMASQYRDD 345 (356) T ss_dssp CHHHHHHHHTCSSHHHHHHHTCC T ss_pred CHHHHHHHHCCCCHHHHHHHCCC T ss_conf 99999988189998999988047 No 2 >1z19_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 2.80A {Enterobacteria phage lambda} PDB: 1p7d_A* Probab=100.00 E-value=1.8e-40 Score=280.27 Aligned_cols=255 Identities=19% Similarity=0.235 Sum_probs=217.3 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 ~Tl~e~l~~y~~~~~~~~l~~~T~~~y~~~l~~~~~~~g~~~l~~it~~~i~~~~~~~~~~~~~~t~~~~~~~l~~~~~~ 80 (283) T 1z19_A 1 MTLHSWLDRYEKILASRGIKQKTLINYMSKIKAIRRGLPDAPLEDITTKEIAAMLNGYIDEGKAASAKLIRSTLSDAFRE 80 (283) T ss_dssp CBHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHSCSCBGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH T ss_conf 92999999999999876999999999999999999997699968799999999999999858999999999999999999 Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCC-HHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCC Q ss_conf 45520010566510346432444421165234456666403780-89999898986188731002566401443023321 Q gi|254780134|r 147 AVRQEYVAINPCLSVERPKRKTEGIRPWTKEDMQQFKSFWSEGS-QPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIK 225 (348) Q Consensus 147 a~~~~~i~~NP~~~v~~~~~~~~~~~~~t~~ei~~~~~~~~~~~-~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~i~~~ 225 (348) |++.|+++.||+..++.++.+.. ...++.+|+.++++.+.... ..++++.|+++||||.+|+++|+|+||+++.+.+. T Consensus 81 a~~~~~i~~np~~~~~~~~~~~~-~~~lt~~e~~~i~~~~~~~~~~~~~~~~l~~~tG~R~~Ei~~L~~~di~~~~~~i~ 159 (283) T 1z19_A 81 AIAEGHITTNHVAATRAAKSKVR-RSRLTADEYLKIYQAAESSPCWLRLAMELAVVTGQRVGDLCEMKWSDIVDGYLYVE 159 (283) T ss_dssp HHHTTSCSCCTTTTSCCCCCCCC-CCCCCHHHHHHHHHHGGGSCHHHHHHHHHHHHSCCCHHHHTTCBGGGEETTEEEEE T ss_pred HHHCCCCCCCCHHHCCCCCCCCC-CCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHCCCHHHHCCCEEEEE T ss_conf 99859865481765005534777-77688999999999871488899999999999787865575192999218804998 Q ss_pred CCCCHHHHHHCCH-------HHHHHHHHHHC--CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC-----CCCCHHHH Q ss_conf 1331024331121-------68999996420--1332211222457758778999999999983889-----98140269 Q gi|254780134|r 226 TQKTGTIITVELP-------DGFMKLLAMTP--IGKETFFINNDKQKMNATQFSIWFKAKATKAGVN-----KSAHGVRK 291 (348) Q Consensus 226 ~~Kt~~~~~vpl~-------~~l~~~l~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~-----~~~H~lRh 291 (348) ..|++....+|+. ..+.+.+.... .....+|++..|.|++..+++..|+++++.+|++ .++|+||| T Consensus 160 ~~K~~~~~~~p~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~lR~ 239 (283) T 1z19_A 160 QSKTGVKIAIPTALHIDALGISMKETLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSFEGDPPTFHELRS 239 (283) T ss_dssp CTTTCCEEEEETTCEETTTTEEHHHHHHHHHHHHCSSBSSCCTTSSCCCHHHHHHHHHHHHHHTTCCCSSSCCCGGGHHH T ss_pred ECCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCHHHH T ss_conf 66888424610738789999988888875303577740232013244671579999999999808876799997285999 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 240 ~~~-~l~~~g~~~~~i~~~lGH~~~~~t~~Y~~~ 272 (283) T 1z19_A 240 LSA-RLYEKQISDKFAQHLLGHKSDTMASQYRDD 272 (283) T ss_dssp HHH-HHHHHHTCHHHHHHHHTCSSSCC------- T ss_pred HHH-HHHHCCCCHHHHHHHHCCCCHHHHHHHHHC T ss_conf 999-999869899999998389988999998425 No 3 >1a0p_A Site-specific recombinase XERD; DNA binding, DNA recombination; 2.50A {Escherichia coli} SCOP: a.60.9.1 d.163.1.1 Probab=100.00 E-value=2.4e-33 Score=233.93 Aligned_cols=253 Identities=17% Similarity=0.231 Sum_probs=189.3 Q ss_pred HHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHC--CCCHHHCCHHHHHHHHHHHC---CCHHHHHHHHHHHHHHHHHH Q ss_conf 99999983554-35697889999999999999956--99958969999999887515---99789999999999999644 Q gi|254780134|r 74 LISEYRKSAHW-GSLAVNSRISFESYFDQIIRKSG--DFDYRKITTKHIRSGVESRK---HTPSSAIQFLTSMRVLFKWA 147 (348) Q Consensus 74 l~~~y~~~~~~-~~l~~~T~~~~~~~~~~~~~~~g--~~~l~~it~~~i~~~~~~~~---~~~~t~n~~~~~l~~~~~~a 147 (348) -+++|+..... ++++++|+..|+..+++|..+++ ..++.+|+..+|.+|+..+. .++.|++.+++.|+.+|+|| T Consensus 5 ~i~~fl~~l~~er~ls~~T~~~Y~~~l~~f~~~l~~~~~~~~~i~~~~i~~~~~~l~~~~~s~~t~~~~l~~l~~~~~~~ 84 (290) T 1a0p_A 5 RIEQFLDALWLEKNLAENTLNAYRRDLSMMVEWLHHRGLTLATAQSDDLQALLAERLEGGYKATSSARLLSAVRRLFQYL 84 (290) T ss_dssp HHHHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHHHHTSCCTTTCCHHHHHHHHHSCC-------CHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH T ss_conf 99999999999869089999999999999999998859993769999999999999877998899999999999999999 Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHH-H---CCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEE--EEC Q ss_conf 55200105665103464324444211652344566664-0---37808999989898618873100256640144--302 Q gi|254780134|r 148 VRQEYVAINPCLSVERPKRKTEGIRPWTKEDMQQFKSF-W---SEGSQPRLAFEFLLYSGLRCSDSCRAGVQHLQ--NNI 221 (348) Q Consensus 148 ~~~~~i~~NP~~~v~~~~~~~~~~~~~t~~ei~~~~~~-~---~~~~~~~~~~~l~~~TG~R~~Ei~~L~~~did--~~~ 221 (348) .+.+++..||+..+..++............+....... . ......++++.|+++||||.+|+++|+|+||| ++. T Consensus 85 ~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~tG~R~~Ei~~L~~~did~~~~~ 164 (290) T 1a0p_A 85 YREKFREDDPSAHLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGV 164 (290) T ss_dssp HHTTSSSSCTTSCC----------CCCCHHHHHHHHHCSCTTSHHHHHHHHHHHHHHHHCCCHHHHTTCBGGGEETTTTE T ss_pred HHHCCCCCCHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHCCHHHCCCCCCE T ss_conf 98243346817650377766667651008999998752100134118999999999995877899980949995757998 Q ss_pred CCCCCCCCHHHHHHCCHHHHHHHHHH----------HCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC---CCCCH Q ss_conf 33211331024331121689999964----------201332211222457758778999999999983889---98140 Q gi|254780134|r 222 FSIKTQKTGTIITVELPDGFMKLLAM----------TPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVN---KSAHG 288 (348) Q Consensus 222 i~~~~~Kt~~~~~vpl~~~l~~~l~~----------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~---~~~H~ 288 (348) +. ...|+++.+.++..+.....+.. ........+....+.+.....+...++..+..+|+. .++|+ T Consensus 165 i~-~~~K~~k~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~H~ 243 (290) T 1a0p_A 165 VR-VIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEKLSPHV 243 (290) T ss_dssp EE-EECSSSCEEEEECCHHHHHHHHHHHHHTHHHHHTTCCCCBSSBCTTSSBCCHHHHHHHHHHHHHHTTCCGGGCCHHH T ss_pred EE-ECCCCCCEEEECCHHHHHHHHHHHHHHCCCHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCC T ss_conf 98-66889940141132777778999998500111013445554533356654237899999999999457899987451 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 269999999984899889999964999899999999998 Q gi|254780134|r 289 VRKFSATISADAGATAHELMATYGWKTVDQAETYTKGAD 327 (348) Q Consensus 289 lRht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~~ 327 (348) |||||||.+.++|+++.+||.+|||+|+.||++|++..+ T Consensus 244 lRht~at~l~~~G~~~~~i~~~lGH~s~~tT~~Y~~~~~ 282 (290) T 1a0p_A 244 LRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVAT 282 (290) T ss_dssp HHHHHHHHHHHHCSSCGGGSSCC--CCCCHHHHHHHHHH T ss_pred CHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHCCCH T ss_conf 779999999987899999998818998899999987899 No 4 >2a3v_A Site-specific recombinase INTI4; protein-DNA complex, recombination; HET: DNA; 2.80A {Vibrio cholerae o1 biovar eltor str} Probab=100.00 E-value=7.5e-33 Score=230.68 Aligned_cols=258 Identities=17% Similarity=0.173 Sum_probs=194.6 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHC----CCHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999835543569788999999999999995699958969999999887515----997899999999999996445 Q gi|254780134|r 73 WLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRK----HTPSSAIQFLTSMRVLFKWAV 148 (348) Q Consensus 73 ~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~----~~~~t~n~~~~~l~~~~~~a~ 148 (348) .-+++|+.. ++++++|+.+|...+++|...+++.++.+|+..+|++|++.+. .++.+.+..++.++.++.++. T Consensus 7 ~~~~~yl~~---r~~s~~T~~~Y~~~l~~f~~~~~~~~~~~i~~~~i~~~~~~l~~~~~~s~~~~~~~~~~~~~~~~~~~ 83 (320) T 2a3v_A 7 LSVREFMQT---RYYAKKTIEAYLHWITRYIHFHNKKHPSLMGDKEVEEFLTYLAVQGKVATKTQSLALNSLSFLYKEIL 83 (320) T ss_dssp HHHHHHHHH---TTCCHHHHHHHHHHHHHHHTTSSSCCGGGCCHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHTS T ss_pred HHHHHHHHH---HCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH T ss_conf 999999998---59689999999999999999972279323999999999999998489569999999999999998866 Q ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEE--EECCCCCC Q ss_conf 5200105665103464324444211652344566664037808999989898618873100256640144--30233211 Q gi|254780134|r 149 RQEYVAINPCLSVERPKRKTEGIRPWTKEDMQQFKSFWSEGSQPRLAFEFLLYSGLRCSDSCRAGVQHLQ--NNIFSIKT 226 (348) Q Consensus 149 ~~~~i~~NP~~~v~~~~~~~~~~~~~t~~ei~~~~~~~~~~~~~~~~~~l~~~TG~R~~Ei~~L~~~did--~~~i~~~~ 226 (348) ..+....+|+.. ++.......+++.+|+..+.... ....++++.++++||+|.+|+++|.|.|++ .+.+.+.. T Consensus 84 ~~~~~~~~~~~~---~k~~k~~~~~l~~~e~~~~~~~~--~~~~~~~~~ll~~tG~R~~E~~~l~~~d~~~~~~~i~~~~ 158 (320) T 2a3v_A 84 KTPLSLEIRFQR---SQLERKLPVVLTRDEIRRLLEIV--DPKHQLPIKLLYGSGLRLMECMRLRVQDIDFDYGAIRIWQ 158 (320) T ss_dssp SCCCCTTCCCCC---CCCCCCCCCCCCHHHHHHHTTSS--CHHHHHHHHHHHHSCCCHHHHHTCBGGGEETTTTEEEEEE T ss_pred HHCCCCCCCCCC---CCCCCCCCCCCCHHHHHHHHHCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCEEEEE T ss_conf 403573356766---78788899767899999998556--8178999999998287378888878775103332303663 Q ss_pred CCCHHHHHHCCHHHHHHHHHHHC------------CC--CCCC---------------------C-----------CCCC Q ss_conf 33102433112168999996420------------13--3221---------------------1-----------2224 Q gi|254780134|r 227 QKTGTIITVELPDGFMKLLAMTP------------IG--KETF---------------------F-----------INND 260 (348) Q Consensus 227 ~Kt~~~~~vpl~~~l~~~l~~~~------------~~--~~~~---------------------~-----------~~~~ 260 (348) .|+++.+.+|+.+.+...+.... .. ...+ + .... T Consensus 159 ~k~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (320) T 2a3v_A 159 GKGGKNRTVTLAKELYPHLKEQIALAKRYYDRDLHQKNYGGVWLPTALKEKYPNAPYEFRWHYLFPSFQLSLDPESDVMR 238 (320) T ss_dssp ETTTEEEEEECCGGGHHHHHHHHHHHHHHHHHHTSCTTBCCSCCSTTCTTTSTTGGGCGGGSBSSBCSSCEEETTTTEEE T ss_pred CCCCCEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHCCCCEECCCCCCCCCCCCCCCC T ss_conf 67870138726599999999999985654322332113442120377766453530101331002455555554323323 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCC--CCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 57758778999999999983889--9814026999999998489988999996499989999999999899999999999 Q gi|254780134|r 261 KQKMNATQFSIWFKAKATKAGVN--KSAHGVRKFSATISADAGATAHELMATYGWKTVDQAETYTKGADRIRLGIKNSRR 338 (348) Q Consensus 261 g~~~~~~~~~~~~~~~~~~agi~--~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~~~~r~a~~a~~~ 338 (348) +.++........+++.++.+|++ .++|+|||||||.|+++|+++.+||.+|||+|++||++|++..++. ..++++. T Consensus 239 ~~~~~~~~~~~~~~~~~~~~gl~~~~s~H~lRHtfaT~ll~~g~~l~~vq~~lGHss~~tT~~Y~hl~~~~--~~~~~~~ 316 (320) T 2a3v_A 239 RHHMNETVLQKAVRRSAQEAGIEKTVTCHTLRHSFATHLLEVGADIRTVQEQLGHTDVKTTQIYTHVLDRG--ASGVLSP 316 (320) T ss_dssp CCBCCHHHHHHHHHHHHHTTCCCSCCCHHHHHHHHHHHHHHTTCCHHHHHHHHTCSSHHHHGGGCC--------CCCCCH T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHCCCHHH--HHHHHHH T ss_conf 56465899999999999985999998887778999999998789999999883899889999998279978--9999717 Q ss_pred HH Q ss_conf 98 Q gi|254780134|r 339 IS 340 (348) Q Consensus 339 l~ 340 (348) |+ T Consensus 317 l~ 318 (320) T 2a3v_A 317 LS 318 (320) T ss_dssp HH T ss_pred HH T ss_conf 62 No 5 >1xo0_A Recombinase CRE; CRE recombinase, holliday junction, recombination,complex (recombinase/DNA), hydrolase, ligase/DNA complex; 2.00A {Enterobacteria phage P1} SCOP: a.60.9.1 d.163.1.1 PDB: 3crx_A* 1kbu_A 1ma7_A 1q3u_A* 1q3v_A* 3mgv_A* 1ouq_A* 1nzb_A* 2crx_A* 1xns_A 5crx_A* 1f44_A* 2hof_A 2hoi_A 4crx_A* 1drg_A 3c29_A* 3c28_A 1crx_A* 1pvr_A ... Probab=99.95 E-value=9.8e-27 Score=190.93 Aligned_cols=256 Identities=15% Similarity=0.148 Sum_probs=176.9 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHC--CCCHHHCCHHHHHHHHHHH---CCCHHHHHHHHHHHHHHHH Q ss_conf 8999999998355435697889999999999999956--9995896999999988751---5997899999999999996 Q gi|254780134|r 71 LKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSG--DFDYRKITTKHIRSGVESR---KHTPSSAIQFLTSMRVLFK 145 (348) Q Consensus 71 l~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g--~~~l~~it~~~i~~~~~~~---~~~~~t~n~~~~~l~~~~~ 145 (348) +.+-+.+|++.. +.++++|+..|...++.|..++. +.++.+|++.+|.+|++.+ +.+++|+|.+++.|+.+|+ T Consensus 4 ~~~~~~~~~~~~--~~~s~~T~~~y~~~~~~f~~f~~~~~~~~~~it~~~v~~y~~~l~~~g~s~~Ti~~~l~~l~~~~~ 81 (324) T 1xo0_A 4 VRKNLMDMFRDR--QAFSEHTWKMLLSVCRSWAAWCKLNNRKWFPAEPEDVRDYLLYLQARGLAVKTIQQHLGQLNMLHR 81 (324) T ss_dssp HHHHHHHHHHTG--GGSCHHHHHHHHHHHHHHHHHHHHHTCCCSSCCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH T ss_conf 999999999986--485999999999999999999997398956799999999999998779998999999999887789 Q ss_pred HHHHHHHHHHHHHHCCCCC--------CCCCCCCCCCCHHHHHHHHHHHCCC-----CHHHHHHHHHHHCCCCCCCCCCC Q ss_conf 4455200105665103464--------3244442116523445666640378-----08999989898618873100256 Q gi|254780134|r 146 WAVRQEYVAINPCLSVERP--------KRKTEGIRPWTKEDMQQFKSFWSEG-----SQPRLAFEFLLYSGLRCSDSCRA 212 (348) Q Consensus 146 ~a~~~~~i~~NP~~~v~~~--------~~~~~~~~~~t~~ei~~~~~~~~~~-----~~~~~~~~l~~~TG~R~~Ei~~L 212 (348) ||...+.+..+|....... ........+++.++...+....... .+.+.++.+++.+|+|.+|++.+ T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~r~~e~~~~ 161 (324) T 1xo0_A 82 RSGLPRPSDSNAVSLVMRRIRKENVDAGERAKQALAFERTDFDQVRSLMENSDRCQDIRNLAFLGIAYNTLLKIAEIARI 161 (324) T ss_dssp HHTSCCGGGSHHHHHHHHHHHHHHHHTTCCCCCCCCCCHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHCCCHHHHHHC T ss_pred HHHHCCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHC T ss_conf 98742644463365530100001455332333577688999999998664534077899999999876555728988641 Q ss_pred CCCEEEEE-----CCCCCCCCC---HHHHHHCCHHHHHHHHHHHCC----------------CCCCCCCCCCCCCCCHHH Q ss_conf 64014430-----233211331---024331121689999964201----------------332211222457758778 Q gi|254780134|r 213 GVQHLQNN-----IFSIKTQKT---GTIITVELPDGFMKLLAMTPI----------------GKETFFINNDKQKMNATQ 268 (348) Q Consensus 213 ~~~did~~-----~i~~~~~Kt---~~~~~vpl~~~l~~~l~~~~~----------------~~~~~~~~~~g~~~~~~~ 268 (348) .|.|++.. .+.....|+ +..+.+|+.+.+.+++..... ....++.+..+.++...+ T Consensus 162 ~~~d~~~~~~~~~~~~~~~~k~~~~~~~r~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (324) T 1xo0_A 162 RVKDISRTDGGRMLIHIGRTKTLVSTAGVEKALSLGVTKLVERWISVSGVADDPNNYLFCRVRKNGVAAPSATSQLSTRA 241 (324) T ss_dssp BGGGEEEEETTEEEEEECCCCSSSSCSCEEEEECHHHHHHHHHHHHHHCGGGSTTSBSSCEECTTSCEECCSSCCCCHHH T ss_pred CCCCCCCCCCCCEEECCCCCCCCCCCCCEEEEHHHHHHHHHHHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCH T ss_conf 12100015676300012344333236630220047799999999986022345432001014667665664456666402 Q ss_pred HHHHHHH---HHHH----CCC---CCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHH Q ss_conf 9999999---9998----388---9981402699999999848998899999649998999999999989 Q gi|254780134|r 269 FSIWFKA---KATK----AGV---NKSAHGVRKFSATISADAGATAHELMATYGWKTVDQAETYTKGADR 328 (348) Q Consensus 269 ~~~~~~~---~~~~----agi---~~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~~~ 328 (348) +...+.. .+.. +|+ ..++|+|||||||.|+++|+++.+||.+|||+|++||++|.+..+. T Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~H~lRHt~at~l~~~G~~~~~v~~~lGH~s~~tt~~Y~~~~~~ 311 (324) T 1xo0_A 242 LEGIFEATHRLIYGAKDDSGQRYLAWSGHSARVGAARDMARAGVSIPEIMQAGGWTNVNIVMNYIRNLDS 311 (324) T ss_dssp HHHHHHHHHHHHHCSCCCSCCSCSSCCTTHHHHHHHHHHHHTTCCHHHHHHHHTCSSSSSHHHHSTTSGG T ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHCCCHH T ss_conf 5567788889999998861788887788631999999999878999999988289988999998356468 No 6 >3nkh_A Integrase; alpha-fold, MRSA protein, structural genomics, PSI-2, protei structure initiative; 2.50A {Staphylococcus aureus subsp} Probab=99.92 E-value=2.7e-24 Score=175.07 Aligned_cols=184 Identities=15% Similarity=0.225 Sum_probs=132.1 Q ss_pred HHCCCCCC--CCCCCCCCCCHHHHHHHHHHHCCCC-------------HHHHHHHHHHHCCCCCCCCCCCCCCEEE--EE Q ss_conf 51034643--2444421165234456666403780-------------8999989898618873100256640144--30 Q gi|254780134|r 158 CLSVERPK--RKTEGIRPWTKEDMQQFKSFWSEGS-------------QPRLAFEFLLYSGLRCSDSCRAGVQHLQ--NN 220 (348) Q Consensus 158 ~~~v~~~~--~~~~~~~~~t~~ei~~~~~~~~~~~-------------~~~~~~~l~~~TG~R~~Ei~~L~~~did--~~ 220 (348) +.+|.... ...+....++.+|+..++....... ...+++.|+++||||+||+++|+|+||| ++ T Consensus 8 ~~~vd~~~~~~~~~~~~~l~~~Ei~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~ll~~TG~R~~El~~L~~~did~e~~ 87 (244) T 3nkh_A 8 SSGVDLGTENLYFQSNAYLELNEIESIIKDINTKAQKMHSGIHKRFYLFVALMTEFQALNGMRIGEMLAIQNEDIDFDNK 87 (244) T ss_dssp -------------CCSCCCCHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHCCCHHHHHTCBGGGEETTTT T ss_pred CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHCCCCHHCCCCCC T ss_conf 56761577521001589999999999999987632012321146679999999999998393689995191352166556 Q ss_pred CCCCC-----------------CCCCHH-HHHHCCHHHHHHHHHHHC-------------CCCCCCCCCCCCCCCCHHHH Q ss_conf 23321-----------------133102-433112168999996420-------------13322112224577587789 Q gi|254780134|r 221 IFSIK-----------------TQKTGT-IITVELPDGFMKLLAMTP-------------IGKETFFINNDKQKMNATQF 269 (348) Q Consensus 221 ~i~~~-----------------~~Kt~~-~~~vpl~~~l~~~l~~~~-------------~~~~~~~~~~~g~~~~~~~~ 269 (348) .+.+. ..|+.. .+.|||++.+.++|.... .....+|.+..|.|++..++ T Consensus 88 ~i~v~~~~~~~~~~~~~~~~~~~~k~~~~~R~i~i~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~f~~~~g~~~s~~~~ 167 (244) T 3nkh_A 88 SLNINGTIHWFHDESGGFGVKDTTKTESSYRTIGLSSRSCEILKKAILENKKDSKWNDGYLNRNFVFTNHKGNPMQTERF 167 (244) T ss_dssp EEEECCEEEEEECTTSCEEEEECC---CCCEEEECCHHHHHHHHHHHHHHHHHHHHCTTCCCCSBSSBCTTSSBCCHHHH T ss_pred EEEEECCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEECCCCCCCCHHH T ss_conf 25783241010103677421345567785068832088878899999986543203556787654122037972320010 Q ss_pred HHHHHHHHHHCCCC--CCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHH-HHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999983889--981402699999999848998899999649998999-999999989999999999998540 Q gi|254780134|r 270 SIWFKAKATKAGVN--KSAHGVRKFSATISADAGATAHELMATYGWKTVDQA-ETYTKGADRIRLGIKNSRRISSVV 343 (348) Q Consensus 270 ~~~~~~~~~~agi~--~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t-~~Y~~~~~~~r~a~~a~~~l~~~~ 343 (348) ...|+++++.+|++ .++|+|||||||.+.++|+++..|+.+|||+|.+|| ++|++..+. ...+.++.++.+. T Consensus 168 ~~~~~~~~~~~gi~~~~~~H~lRht~at~l~~~g~~~~~i~~~lGH~s~~~t~~~Y~~~~~~--~~~~~~~ki~~l~ 242 (244) T 3nkh_A 168 NKILREAAKDVGIDKEVSSHILRHSHISLLSQQGVSLKAIMDRVGHSDHRTTLSIYSHVTEQ--MDKDMMNKLEQVK 242 (244) T ss_dssp HHHHHHHHHHTTCCSCCSHHHHHHHHHHHHHHTTCCHHHHHHHHCSTTHHHHHHHHHHHHHH--HHHTHHHHHHTCC T ss_pred HHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCCHH--HHHHHHHHHHHHH T ss_conf 01577899981887546763348999999998699999999983899889999984467999--9999999988763 No 7 >1aih_A HP1 integrase; DNA integration, recombination; 2.50A {Haemophilus phage HP1} SCOP: d.163.1.1 Probab=99.90 E-value=2.6e-24 Score=175.17 Aligned_cols=146 Identities=15% Similarity=0.145 Sum_probs=114.0 Q ss_pred CCCCCCHHHHHHHHHHHCC--CCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCHHHHHHHHHH Q ss_conf 4211652344566664037--80899998989861887310025664014430233211331024331121689999964 Q gi|254780134|r 170 GIRPWTKEDMQQFKSFWSE--GSQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVELPDGFMKLLAM 247 (348) Q Consensus 170 ~~~~~t~~ei~~~~~~~~~--~~~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vpl~~~l~~~l~~ 247 (348) +...+++||+.+|++.+.. ....++++.|+++||||++|+++|+|+|||++.+.+...|+++.+.|||++.+.++|.. T Consensus 3 ~~~~Ls~eEi~~ll~~~~~~~~~~~~~~i~~~~~tG~R~~E~~~L~~~dI~~~~~~~~~~K~~~~r~vpl~~~~~~~l~~ 82 (170) T 1aih_A 3 ELAFLYERDIYRLLAECDNSRNPDLGLIVRICLATGARWSEAETLTQSQVMPYKITFTNTKSKKNRTVPISDELFDMLPK 82 (170) T ss_dssp CCCCCCHHHHHHHHHHHTTSSSTTHHHHHHHHHHHCCCHHHHHTCBTTTEETTEEEEESSSSSCEEEEECCHHHHHHSCC T ss_pred CCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHCCCCCCCCCCEEEEECCCCCEEEECCHHHHHHHHHH T ss_conf 34689999999999986565897799999999997856999985864104665125663256620362647999999998 Q ss_pred HCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC--CCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 20133221122245775877899999999998388--9981402699999999848998899999649998999999999 Q gi|254780134|r 248 TPIGKETFFINNDKQKMNATQFSIWFKAKATKAGV--NKSAHGVRKFSATISADAGATAHELMATYGWKTVDQAETYTKG 325 (348) Q Consensus 248 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi--~~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~ 325 (348) .. ..+| +.....+...+.+ ...++ ..++|+|||||||.+.++|+++.+|+.+|||+|..||++|++. T Consensus 83 ~~---~~~~------~~~~~~~~~~~~~--~~~~~~~~~~~H~lRht~at~l~~~g~~~~~i~~~lGH~s~~~t~~Y~~~ 151 (170) T 1aih_A 83 KR---GRLF------NDAYESFENAVLR--AEIELPKGQLTHVLRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAHF 151 (170) T ss_dssp CS---SBSS------CCCHHHHHHHHHH--TTCCCCTTCTTTHHHHHHHHHHHHTTCCHHHHHHHHTCSSHHHHGGGGGG T ss_pred HC---CCCC------CCCHHHHHHHHHH--HHHCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHCC T ss_conf 42---7766------6204678999988--86236876321301648999999869979999998389989999998877 Q ss_pred H Q ss_conf 9 Q gi|254780134|r 326 A 326 (348) Q Consensus 326 ~ 326 (348) . T Consensus 152 ~ 152 (170) T 1aih_A 152 A 152 (170) T ss_dssp S T ss_pred C T ss_conf 9 No 8 >1ae9_A Lambda integrase; DNA recombination, site-specific recombination; 1.90A {Enterobacteria phage lambda} SCOP: d.163.1.1 Probab=99.84 E-value=7.3e-21 Score=152.72 Aligned_cols=152 Identities=18% Similarity=0.271 Sum_probs=120.7 Q ss_pred CCCCHHHHHHHHHHHCCC-CHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCHHHHHHH------ Q ss_conf 116523445666640378-0899998989861887310025664014430233211331024331121689999------ Q gi|254780134|r 172 RPWTKEDMQQFKSFWSEG-SQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVELPDGFMKL------ 244 (348) Q Consensus 172 ~~~t~~ei~~~~~~~~~~-~~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vpl~~~l~~~------ 244 (348) .++|.||+.+|+++++.. ...+++|.|+++||||.+|+++|+|+||+++...+...|++....+|+.+..... T Consensus 2 ~~lt~eE~~~l~~~~~~~~~~~~~~~~l~~~TG~R~~E~~~L~~~di~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~ 81 (179) T 1ae9_A 2 SRLTADEYLKIYQAAESSPCWLRLAMELAVVTGQRVGDLCEMKWSDIVDGYLYVEQSKTGVKIAIPTALHIDALGISMKE 81 (179) T ss_dssp CCCCHHHHHHHHHHGGGSCHHHHHHHHHHHHHCCCHHHHHHCBGGGEETTEEEEECTTTCCEEEEETTCEEGGGTEEHHH T ss_pred CCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCEEEEEECCHHHHHHHHHHHH T ss_conf 99999999999998756889999999999997575999983620103340147874255303455466889999999988 Q ss_pred -HHH--HCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC-----CCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCH Q ss_conf -964--201332211222457758778999999999983889-----981402699999999848998899999649998 Q gi|254780134|r 245 -LAM--TPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVN-----KSAHGVRKFSATISADAGATAHELMATYGWKTV 316 (348) Q Consensus 245 -l~~--~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~-----~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~ 316 (348) ... .......++....+.+....+....+..+++.++.. .++|++||++++. +++|+++.+||++|||+|. T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~-~~~g~~~~~i~~~~GH~s~ 160 (179) T 1ae9_A 82 TLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSFEGDPPTFHELRSLSARL-YEKQISDKFAQHLLGHKSD 160 (179) T ss_dssp HHHHHHHHTCCSBSSCCTTSCCCCHHHHHHHHHHHHHHHTCCCSSSCCCTTHHHHHHHHH-HHHHTCHHHHHHHHTC--- T ss_pred HHHHHCCCCCCCCEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-HHCCCCHHHHHHHHCCCCH T ss_conf 775311357764111035777544420478999999998523565401487899999999-9959999999998389999 Q ss_pred HHHHHHHH Q ss_conf 99999999 Q gi|254780134|r 317 DQAETYTK 324 (348) Q Consensus 317 ~~t~~Y~~ 324 (348) +||++|.+ T Consensus 161 ~~t~~Y~~ 168 (179) T 1ae9_A 161 TMASQFRD 168 (179) T ss_dssp -----CEE T ss_pred HHHHHHHH T ss_conf 99999985 No 9 >2kob_A Uncharacterized protein; alpha beta, structural genomics, PSI-2, protein structure initiative; NMR {Clostridium leptum dsm 753} Probab=99.63 E-value=1.8e-15 Score=117.60 Aligned_cols=104 Identities=16% Similarity=0.171 Sum_probs=96.2 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 r~Tf~~~~~~wl~~~~~~~~~~~T~~~~~~~~~~~~~~lg~~~l~~It~~~i~~~l~~~~~s~~t~~~~~~~l~~~f~~A 80 (108) T 2kob_A 1 RDSFGDWAEKFLKSKEADGVSVSQLNSYKNYCRNHLSPLYMKSLSEILPADIQSIINETKLAKNTLKAIRNTASQIFRLA 80 (108) T ss_dssp CCBHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHTSHHHHTSBGGGCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH T ss_conf 93399999999997472898999999999999999999868819998788999999873326689999999999999999 Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCC Q ss_conf 552001056651034643244442 Q gi|254780134|r 148 VRQEYVAINPCLSVERPKRKTEGI 171 (348) Q Consensus 148 ~~~~~i~~NP~~~v~~~~~~~~~~ 171 (348) ++.++|+.|||..|+.|+..++.. T Consensus 81 v~~~~i~~NP~~~vk~Pk~~pe~~ 104 (108) T 2kob_A 81 IENRAIDFNPADYVRIPKIALEHH 104 (108) T ss_dssp HHTTSSSSCGGGTCCCCCCCCSSC T ss_pred HHCCCCCCCHHHCCCCCCCCCCCC T ss_conf 988880229162386899984235 No 10 >2oxo_A Integrase; DNA-binding protein, four-helix bundle, DNA binding protein; 2.00A {Unidentified phage} Probab=99.58 E-value=7.2e-15 Score=113.75 Aligned_cols=99 Identities=20% Similarity=0.195 Sum_probs=91.8 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 iTl~~~~~~yl~~~~~~~~~~~T~~~y~~~l~~~~~~~g~~~l~~it~~~i~~~~~~~~~~~~~~t~~~~~~~l~~~f~~ 80 (103) T 2oxo_A 1 MTLHSWLDRYEKILASRGIKQKTLINYMSKIKAIRRGLPDAPLEDITTKEIAAMLNGYIDEGKAASAKLIRSTLSDAFRE 80 (103) T ss_dssp CBHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHSCSCBGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH T ss_conf 96999999999999887999999999999999999998689677764698999999999847715899999999999999 Q ss_pred HHHHHHHHHHHHHCCCCCCCC Q ss_conf 455200105665103464324 Q gi|254780134|r 147 AVRQEYVAINPCLSVERPKRK 167 (348) Q Consensus 147 a~~~~~i~~NP~~~v~~~~~~ 167 (348) |+..|+++.||+..|+.|+.+ T Consensus 81 Av~~g~i~~NP~~~vk~pk~k 101 (103) T 2oxo_A 81 AIAEGHITTNHVAATRAAKSE 101 (103) T ss_dssp HHHTTSCSSCTTC-------- T ss_pred HHHCCCCCCCCHHHCCCCCCC T ss_conf 998889576954316667878 No 11 >2kiw_A INT protein; alpha, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; NMR {Staphylococcus haemolyticus JCSC1435} Probab=99.55 E-value=4e-14 Score=108.93 Aligned_cols=98 Identities=18% Similarity=0.259 Sum_probs=89.4 Q ss_pred CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHH Q ss_conf 78999999998355435697889999999999999956999589699999998875159--9789999999999999644 Q gi|254780134|r 70 TLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRKH--TPSSAIQFLTSMRVLFKWA 147 (348) Q Consensus 70 Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~~--~~~t~n~~~~~l~~~~~~a 147 (348) ||+++++.|+.... ..++++|...|+..++++.+.+|+.++.+|++.+|+++++.+.. ++.++++.++.|+++|+|| T Consensus 1 Tf~~~~~~wl~~~~-~~~k~st~~~~~~~~~~~~~~lg~~~l~~It~~~i~~~~~~l~~~~s~~t~~~~~~~l~~~f~~A 79 (111) T 2kiw_A 1 TFKQVADDWLKQYA-NDVKVSSVRAREKAIQHAIERFNTKPIQTIKKHDYQRFVDDISAQYSKNYVDSIVASTNMIFKYA 79 (111) T ss_dssp CHHHHHHHHHHHHT-TSSCHHHHHHHHHHHHHHHHHTTSSCGGGCCHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHHHHHHCCCCCHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH T ss_conf 99999999999987-50899999999999999999987883412100458999999997504999998999999999999 Q ss_pred HHHHHHHHHHHHCCCCCCCCC Q ss_conf 552001056651034643244 Q gi|254780134|r 148 VRQEYVAINPCLSVERPKRKT 168 (348) Q Consensus 148 ~~~~~i~~NP~~~v~~~~~~~ 168 (348) +++|+|+.||+.+|+.|+... T Consensus 80 ~~~~~i~~NP~~~v~~pk~~~ 100 (111) T 2kiw_A 80 YDTRLIKAMPSEGIKRPKKKV 100 (111) T ss_dssp HHTTSCSCCTTTTCCCCSCCC T ss_pred HHCCCCCCCHHHCCCCCCCCC T ss_conf 987891209074085788877 No 12 >2khq_A Integrase; all-alpha, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; NMR {Staphylococcus saprophyticus subsp} Probab=99.54 E-value=6.9e-14 Score=107.37 Aligned_cols=98 Identities=14% Similarity=0.167 Sum_probs=90.0 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 iTf~~~~~~w~~~~~~~~~~~~T~~~y~~~~~~i~~~~g~~~l~~it~~~i~~~~~~l~~~~s~~t~~~~~~~l~~~~~~ 81 (110) T 2khq_A 2 ITFADYFYQWYEVNKLPHVSESTKRHYESAYKHIKDHFRHKLLKDIKRTEYQKFLNEYGLTHSYETIRKLNSYIRNAFDD 81 (110) T ss_dssp CBHHHHHHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHCSSCBGGGCCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHH T ss_pred EEHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 82899999999997627789999999999999999996746040078999999999998641289999999999999999 Q ss_pred HHHHHHHHHHHHHCCCCCCC Q ss_conf 45520010566510346432 Q gi|254780134|r 147 AVRQEYVAINPCLSVERPKR 166 (348) Q Consensus 147 a~~~~~i~~NP~~~v~~~~~ 166 (348) |+++|+|..|||.+|+.+.. T Consensus 82 Av~~~~i~~NP~~~vkl~~~ 101 (110) T 2khq_A 82 AIHEGYVIKNPTYKAELHAS 101 (110) T ss_dssp HHHTTCCCCCGGGGCCCCCG T ss_pred HHHCCCCCCCCCCCCEECCC T ss_conf 99887910198768775721 No 13 >3lys_A Prophage PI2 protein 01, integrase; helical N-terminal domain, structural genomics, PSI-2, protein structure initiative; 2.80A {Lactococcus lactis} Probab=99.50 E-value=1.4e-13 Score=105.44 Aligned_cols=97 Identities=8% Similarity=0.064 Sum_probs=88.8 Q ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHH Q ss_conf 487899999999835543569788999999999999995699958969999999887515--997899999999999996 Q gi|254780134|r 68 PTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMRVLFK 145 (348) Q Consensus 68 ~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~~~~~ 145 (348) ..||.++++.|+.......++++|...|+..++++.+.||+.++.+|++.+|++|++.+. .+++|++.+++.|+++|+ T Consensus 5 k~tl~d~~~~Wl~~~k~~~~~~~T~~~y~~~~~~i~~~~g~~~l~~It~~~i~~~~~~l~~~~s~~tv~~~~~~l~~~~~ 84 (112) T 3lys_A 5 KQEISEYFKDWMELYKKNAIDEMTYKGYEQTLKYLKTYMPNVLISEITASSYQRALNKFAETHAKASTKGFHTRVRASIQ 84 (112) T ss_dssp CSBHHHHHHHHHHHHTTTTSCHHHHHHHHHHHHHHHHHSSSCBTTTCCHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH T ss_conf 07799999999999722889999999999999999999880802007999999999973246426899999999999999 Q ss_pred HHHHHHHHHHHHHHCCCCC Q ss_conf 4455200105665103464 Q gi|254780134|r 146 WAVRQEYVAINPCLSVERP 164 (348) Q Consensus 146 ~a~~~~~i~~NP~~~v~~~ 164 (348) ||+.+|+|..||+.+|+.. T Consensus 85 ~Av~~g~I~~NP~~~v~i~ 103 (112) T 3lys_A 85 CLIEEGRLQKDFTTRAVVK 103 (112) T ss_dssp HHHHTTSCSSCTTSSTTCC T ss_pred HHHHCCCCCCCCCCCCEEC T ss_conf 9998869030888888767 No 14 >2kd1_A DNA integration/recombination/invertion protein; protein structure initiative, structural genomics, unknown function, PSI-2; HET: DNA; NMR {Bacillus cereus atcc 14579} Probab=99.45 E-value=4e-13 Score=102.44 Aligned_cols=104 Identities=16% Similarity=0.279 Sum_probs=91.1 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HHHHHHCCCCHHHCCHHHHHHHHHHH---CCCHHHHHHHHHHHHH Q ss_conf 4487899999999835543569788999999999-99999569995896999999988751---5997899999999999 Q gi|254780134|r 67 KPTTLKWLISEYRKSAHWGSLAVNSRISFESYFD-QIIRKSGDFDYRKITTKHIRSGVESR---KHTPSSAIQFLTSMRV 142 (348) Q Consensus 67 ~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~-~~~~~~g~~~l~~it~~~i~~~~~~~---~~~~~t~n~~~~~l~~ 142 (348) ...||+++++.|+.... ..++++|...|+..++ ++.+.+|+.++.+|++.+++.+++.+ ..++.|+|..++.|++ T Consensus 4 s~~Tf~~~~~~w~~~~~-~~~~~~T~~~y~~~~~~~i~~~~g~~~l~~i~~~~i~~~~~~~~~~~~s~~t~~~~~~~l~~ 82 (118) T 2kd1_A 4 SKLSYGEYLESWFNTKR-HSVGIQTAKVLKGYLNSRIIPSLGNIKLAKLTSLHMQNYVNSLRDEGLKRGTIEKIIKVIRN 82 (118) T ss_dssp SCSBHHHHHHHHHHHHH-HHHCHHHHHHHHHHHTTTHHHHTTSSBGGGCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH T ss_conf 41589999999999983-72899999999999999999986887699989999999987400011589999999999999 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCC Q ss_conf 99644552001056651034643244442 Q gi|254780134|r 143 LFKWAVRQEYVAINPCLSVERPKRKTEGI 171 (348) Q Consensus 143 ~~~~a~~~~~i~~NP~~~v~~~~~~~~~~ 171 (348) +|+||++.|+|..||+.+|+.|+...++. T Consensus 83 ~~~~Av~~~~i~~NP~~~ik~pk~~kkei 111 (118) T 2kd1_A 83 SLEHAIDLELITKNVAAKTKLPKADKEEL 111 (118) T ss_dssp HHHHHHHTTSCSSCTTTTCCCCSCCCCSS T ss_pred HHHHHHHCCCCCCCCHHCCCCCCCCCCCC T ss_conf 99999988693539363093899998630 No 15 >2kkp_A Phage integrase; SAM-like domain, alpha-helical bundle, structural genomics, PSI-2, protein structure initiative; NMR {Moorella thermoacetica atcc 39073} Probab=99.44 E-value=1.3e-13 Score=105.68 Aligned_cols=104 Identities=14% Similarity=0.182 Sum_probs=92.0 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-HHHHHCCCCHHHCCHHHHHHHHHHH---CCCHHHHHHHHHHHHH Q ss_conf 44878999999998355435697889999999999-9999569995896999999988751---5997899999999999 Q gi|254780134|r 67 KPTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQ-IIRKSGDFDYRKITTKHIRSGVESR---KHTPSSAIQFLTSMRV 142 (348) Q Consensus 67 ~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~-~~~~~g~~~l~~it~~~i~~~~~~~---~~~~~t~n~~~~~l~~ 142 (348) ...||+++++.|+......+++++|+..|+..++. +.+.+|+.++.+|+..+++++++.+ +.+++++++.++.|++ T Consensus 5 ~~iTl~~~~~~w~~~~~~~~~~~~T~~~y~~~~~~~i~~~~g~~~l~~It~~~i~~~~~~l~~~~~s~~t~~~~~~~l~~ 84 (117) T 2kkp_A 5 SKITVEQWLNRWLTDYAKPHLRQSTWESYETVLRLHVIPTLGSIPLKKLQPADIQRLYASKLESGLSPTRVRYIHVVLHE 84 (117) T ss_dssp CCSCHHHHHHHHHHHHTSCCCSCCCCSHHHHHHHHHHCCCCCTSCTTTCCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH T ss_conf 84889999999999988778999999999999999999997888099977799998888776257417789789999999 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCC Q ss_conf 9964455200105665103464324444 Q gi|254780134|r 143 LFKWAVRQEYVAINPCLSVERPKRKTEG 170 (348) Q Consensus 143 ~~~~a~~~~~i~~NP~~~v~~~~~~~~~ 170 (348) +|+||+++|+|..||+..|+.|+.+.+. T Consensus 85 ~~~~Av~~~~i~~NP~~~vk~Pk~P~~~ 112 (117) T 2kkp_A 85 AMSQARESGLLLQNPTEAAKPPRHPLEH 112 (117) T ss_dssp HHHHHHTTTSCSSCGGGGSCCCCCCCCC T ss_pred HHHHHHHCCCCCCCCHHHCCCCCCCCCC T ss_conf 9999999869052907319789998655 No 16 >2kj9_A Integrase; DNA_BRE_C superfamily, INTB, PSI-2, structural genomics, protein structure initiative; NMR {Pectobacterium atrosepticum} Probab=99.37 E-value=1.5e-12 Score=98.77 Aligned_cols=100 Identities=13% Similarity=0.220 Sum_probs=86.7 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HHHHHHCCCCHHHCCHHHHHHHHHHHCC--CHHHHHHHHHHHHH Q ss_conf 34487899999999835543569788999999999-9999956999589699999998875159--97899999999999 Q gi|254780134|r 66 KKPTTLKWLISEYRKSAHWGSLAVNSRISFESYFD-QIIRKSGDFDYRKITTKHIRSGVESRKH--TPSSAIQFLTSMRV 142 (348) Q Consensus 66 ~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~-~~~~~~g~~~l~~it~~~i~~~~~~~~~--~~~t~n~~~~~l~~ 142 (348) ....||++++++|+... ...+++|...+...++ ++.|.||+.||.+|++.+|..+++.+.. ++.++++.++.|+. T Consensus 8 ~~~~TF~~va~~W~e~k--~~~~~~t~~~~~~~l~~~i~P~~G~~~i~~It~~~i~~~l~~i~~~g~~~ta~r~~~~l~~ 85 (118) T 2kj9_A 8 NNTRAFKTVAKSWFATK--TTWSEDYQRSVWTRLETYLFPDIGNKDIAELDTGDLLVPIKKIEKLGYLEIAMRVKQYATA 85 (118) T ss_dssp SSCSBHHHHHHHHHHTC--CSSCHHHHHHHHHHHHHTSSTTGGGSBGGGCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH T ss_pred HCCCCHHHHHHHHHHHC--CCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH T ss_conf 73467999999999886--8888879999999999788898588569995559999999999993588999999999999 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 9964455200105665103464324 Q gi|254780134|r 143 LFKWAVRQEYVAINPCLSVERPKRK 167 (348) Q Consensus 143 ~~~~a~~~~~i~~NP~~~v~~~~~~ 167 (348) +|+||+..|+++.||+.+++....+ T Consensus 86 if~~Av~~g~i~~NP~~~i~~~l~k 110 (118) T 2kj9_A 86 IMRYAVQQKMIRFNPAYDLEGAVQK 110 (118) T ss_dssp HHHHHHHTTSSSSCHHHHCCSCSSS T ss_pred HHHHHHHCCCCCCCCHHHHHHHCCC T ss_conf 9999998788333858889874799 No 17 >3nrw_A Phage integrase/site-specific recombinase; alpha-helical domain, structural genomics, PSI-2, protein ST initiative; 1.70A {Haloarcula marismortui} Probab=99.36 E-value=9.7e-12 Score=93.42 Aligned_cols=101 Identities=13% Similarity=0.089 Sum_probs=87.9 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH---CCCCHHHCCHHHHHHHHHHH---CCCHHHHHHHHHH Q ss_conf 34487899999999835543569788999999999999995---69995896999999988751---5997899999999 Q gi|254780134|r 66 KKPTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKS---GDFDYRKITTKHIRSGVESR---KHTPSSAIQFLTS 139 (348) Q Consensus 66 ~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~---g~~~l~~it~~~i~~~~~~~---~~~~~t~n~~~~~ 139 (348) ....|+.++++.|++... .+++++|...|+..++.|...+ |...+.+|++.+|.+|+..+ +.++.|++.+++. T Consensus 4 ~~~~t~~e~ie~yl~~~~-~~ls~~T~~~Y~~~l~~f~~~l~~~~~~~l~~it~~~l~~y~~~l~~~g~s~~Ti~~~~~~ 82 (117) T 3nrw_A 4 RPSLSPREARDRYLAHRQ-TDAADASIKSFRYRLKHFVEWAEERDITAMRELTGWKLDEYETFRRGSDVSPATLNGEMQT 82 (117) T ss_dssp CCCCCHHHHHHHHHHHHT-TTSCHHHHHHHHHHHHHHHHHHHHTTCCSGGGCCHHHHHHHHHHHHTSSCCHHHHHHHHHH T ss_pred CCCCCHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHH T ss_conf 999999999999999978-1868999999999999999999986337887688999999999987122268899699889 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 9999964455200105665103464324 Q gi|254780134|r 140 MRVLFKWAVRQEYVAINPCLSVERPKRK 167 (348) Q Consensus 140 l~~~~~~a~~~~~i~~NP~~~v~~~~~~ 167 (348) |++||+||++.|+|+.||+..|+.|+.- T Consensus 83 lr~f~~~~~~~~~i~~np~~~V~~Pkv~ 110 (117) T 3nrw_A 83 LKNWLEYLARIDVVDEDLPEKVHVPTIL 110 (117) T ss_dssp HHHHHHHHHHTTSSCTTSGGGCCCC--- T ss_pred HHHHHHHHHHCCCCCCCHHHHCCCCCCC T ss_conf 9999999999899675999978799812 No 18 >2kj8_A Putative prophage CPS-53 integrase; INTS, INTC, YFDB, DNA integration, DNA recombination, structural genomics, protein structure initiative; NMR {Escherichia coli k-12} Probab=99.33 E-value=5.8e-12 Score=94.87 Aligned_cols=94 Identities=13% Similarity=0.209 Sum_probs=84.0 Q ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HHHHHHCCCCHHHCCHHHHHHHHHHHCC--CHHHHHHHHHHHHHHH Q ss_conf 487899999999835543569788999999999-9999956999589699999998875159--9789999999999999 Q gi|254780134|r 68 PTTLKWLISEYRKSAHWGSLAVNSRISFESYFD-QIIRKSGDFDYRKITTKHIRSGVESRKH--TPSSAIQFLTSMRVLF 144 (348) Q Consensus 68 ~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~-~~~~~~g~~~l~~it~~~i~~~~~~~~~--~~~t~n~~~~~l~~~~ 144 (348) ..||++++++|++..+ ..++++|...+...++ ++.|.||++++.+|++.+|..+++.+.. ++.++++.++.++.+| T Consensus 4 ~nTF~~~a~eWle~~k-~~~~~~t~~~~~~~l~~~i~P~lG~~~i~~It~~~i~~~l~~i~~~g~~~ta~r~~~~l~~if 82 (118) T 2kj8_A 4 NNSFSAIYKEWYEHKK-QVWSVGYATELAKMFDDDILPIIGGLEIQDIEPMQLLEVIRRFEDRGAMERANKARRRCGEVF 82 (118) T ss_dssp TTBHHHHHHHHHHHHT-TTSCHHHHHHHHHHHHHHHHHHHTTSBTTSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH T ss_conf 5679999999999852-438887999999999988788848982999379999999999999599799999999999999 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 83 ~~Av~~~~i~~NP~~~i~ 100 (118) T 2kj8_A 83 RYAIVTGRAKYNPAPDLA 100 (118) T ss_dssp HHHHHTTSCSCCSHHHHH T ss_pred HHHHHCCCCCCCCHHHHH T ss_conf 999985880238278898 No 19 >2kkv_A Integrase; protein structure, PSI, nesgc, structural genomics, protein structure initiative, northeast structural genomics consortium; NMR {Salmonella enterica subsp} Probab=99.31 E-value=2.2e-12 Score=97.59 Aligned_cols=97 Identities=18% Similarity=0.340 Sum_probs=84.9 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HHHHHHCCCCHHHCCHHHHHHHHHHHCC--CHHHHHHHHHHHH Q ss_conf 234487899999999835543569788999999999-9999956999589699999998875159--9789999999999 Q gi|254780134|r 65 RKKPTTLKWLISEYRKSAHWGSLAVNSRISFESYFD-QIIRKSGDFDYRKITTKHIRSGVESRKH--TPSSAIQFLTSMR 141 (348) Q Consensus 65 ~~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~-~~~~~~g~~~l~~it~~~i~~~~~~~~~--~~~t~n~~~~~l~ 141 (348) .....||++++++|++.. ...+++|...+...++ ++.|.||++++.+|++.+|..+++.+.. .+.++++.++.|+ T Consensus 3 ~~~~~TF~~va~~Wle~~--~~~~~~t~~~~~~~l~~~i~P~lG~~~i~~It~~di~~~l~~i~~~g~~~ta~r~~~~l~ 80 (121) T 2kkv_A 3 NSGAYTFETIAREWHESN--KRWSEDHRSRVLRYLELYIFPHIGSSDIRQLKTSHLLAPIKEVDTSGKHDVAQRLQQRVT 80 (121) T ss_dssp SCCCCSHHHHHHHHHTTC--CSSCHHHHHHHHHHHHHHHSSSSTTSCTTCCCSGGGHHHHHHHHHTTTHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHHC--CCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH T ss_conf 306338999999999987--977761899999999989999938865999739999999999999199799999999999 Q ss_pred HHHHHHHHHHHHHHHHHHCCCC Q ss_conf 9996445520010566510346 Q gi|254780134|r 142 VLFKWAVRQEYVAINPCLSVER 163 (348) Q Consensus 142 ~~~~~a~~~~~i~~NP~~~v~~ 163 (348) .+|+||+..|+++.||+.+++. T Consensus 81 ~if~~Av~~g~i~~NP~~~i~~ 102 (121) T 2kkv_A 81 AIMRYAVQNDYIDSNPASDMAG 102 (121) T ss_dssp HHHHHHHHTTSSCSCSCSSSSC T ss_pred HHHHHHHHCCCCCCCCHHHHHH T ss_conf 9999999868802285778987 No 20 >2kj5_A Phage integrase; GFT NMR, PSI-2, NESG, structural genomics, protein structure initiative; NMR {Nitrosospira multiformis atcc 25196} Probab=99.29 E-value=3.8e-12 Score=96.07 Aligned_cols=103 Identities=18% Similarity=0.264 Sum_probs=83.3 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH-HHHHHHHCCCCHHHCCHHHHHHHHHHHC--CCHHHHHHHHHHHH Q ss_conf 23448789999999983554356978899999999-9999995699958969999999887515--99789999999999 Q gi|254780134|r 65 RKKPTTLKWLISEYRKSAHWGSLAVNSRISFESYF-DQIIRKSGDFDYRKITTKHIRSGVESRK--HTPSSAIQFLTSMR 141 (348) Q Consensus 65 ~~~~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~-~~~~~~~g~~~l~~it~~~i~~~~~~~~--~~~~t~n~~~~~l~ 141 (348) .....||+++++.|+...... ...+...+++.+ +++.+.||+.++.+|++.++.++++.+. .++.+++++++.|+ T Consensus 3 ek~~~T~~~l~~~w~e~~~~~--~~~~~~~~~~~~~~~i~p~~G~~~i~~It~~~i~~~~~~i~~~~~~~ta~~~~~~l~ 80 (116) T 2kj5_A 3 EKNAYTVAQLADEYFERMIAG--RWKHPNIVRSRIEKDIKPAIGSLKVEDVKPRHIDDVLKAVMKRGAPSIANDTLRWLK 80 (116) T ss_dssp SSSCCBHHHHHHHHHHHHTTT--SCSCHHHHHHHHHHTTSCSGGGSBSSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH T ss_pred CCCCCHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHHCCCHHHHHHHHHHH T ss_conf 655433999999999986047--888199999999978489878780887089999999999998366577999999999 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCC Q ss_conf 9996445520010566510346432444 Q gi|254780134|r 142 VLFKWAVRQEYVAINPCLSVERPKRKTE 169 (348) Q Consensus 142 ~~~~~a~~~~~i~~NP~~~v~~~~~~~~ 169 (348) .+|+||++.++|+.||+.+|+.+..+.+ T Consensus 81 ~i~~~A~~~~~i~~NP~~~i~~~~~g~k 108 (116) T 2kj5_A 81 RMFNYAIKRHIIEYNPAAAFDPGDAGGK 108 (116) T ss_dssp HHHHHHHHTTSCSSCGGGGSCCCCCCCC T ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCCC T ss_conf 9999999877956697244972458963 No 21 >2key_A Putative phage integrase; protein structure, PSI, NESG, structural genomics, unknown function, protein structure initiative; NMR {Bacteroides fragilis nctc 9343} Probab=99.23 E-value=2e-11 Score=91.30 Aligned_cols=95 Identities=13% Similarity=0.219 Sum_probs=85.5 Q ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHH----CCCHHHHHHHHHHHHHH Q ss_conf 48789999999983554356978899999999999999569995896999999988751----59978999999999999 Q gi|254780134|r 68 PTTLKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESR----KHTPSSAIQFLTSMRVL 143 (348) Q Consensus 68 ~~Tl~~l~~~y~~~~~~~~l~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~----~~~~~t~n~~~~~l~~~ 143 (348) ..||.++++.|+...+ +.++++|...|+..++.|...+|+.++.+|+..+|++|.+.+ +.+++|++.+++.|+++ T Consensus 7 ~~tf~~~~~~~l~~~~-~~~s~~T~~~Y~~~l~~~~~~~~~~~~~~it~~~i~~f~~~l~~~~~~s~~Ti~~~l~~lr~~ 85 (112) T 2key_A 7 FKSFHDFVASYMKTYS-RRLEIGTFRHHKSCMRKFKEYCEGLQFHELTEDFLRDYLIYMKKTLCNADSTAQRNLSTIKIY 85 (112) T ss_dssp CCSHHHHHHHHTHHHH-TTSCHHHHHHHHHHHHHTTTSCSCCCTTTCCHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH T ss_conf 7899999999999986-479999999999999999998455998986999899999999873277703669999999999 Q ss_pred HHHHHHHHHHHHHHHHCCCC Q ss_conf 96445520010566510346 Q gi|254780134|r 144 FKWAVRQEYVAINPCLSVER 163 (348) Q Consensus 144 ~~~a~~~~~i~~NP~~~v~~ 163 (348) |+||+++|+|..||+..++. T Consensus 86 ~~~A~~~g~i~~nPf~~~~l 105 (112) T 2key_A 86 VSAAIKKGYMENDPFKDFGL 105 (112) T ss_dssp HHHHHHTTSCCSCHHHHHTC T ss_pred HHHHHHCCCCCCCCCCCEEE T ss_conf 99999887943188212464 No 22 >2khv_A Phage integrase; solution structure, GFT, NESG, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Nitrosospira multiformis atcc 25196} Probab=99.15 E-value=7.7e-11 Score=87.54 Aligned_cols=91 Identities=15% Similarity=0.180 Sum_probs=78.0 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 iTF~evA~~w~~~~~~~w~~~~~~~~~~~~l~~~i~P~iG~~~I~~I~~~~i~~~l~~~~~~~~~tA~r~~~~~~~vf~~ 80 (106) T 2khv_A 1 MTFSECAALYIKAHRSSWKNTKHADQWTNTIKTYCGPVIGPLSVQDVDTKLIMKVLDPIWEQKPETASRLRGRIESVLDW 80 (106) T ss_dssp CBHHHHHHHHHHTTGGGGTTSTHHHHHHHHHHHHTHHHHTTSBSSSCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 97999999999985013799889999999999998888299929996889999997999965199999999999999999 Q ss_pred HHHHHHHH-HHHHH Q ss_conf 45520010-56651 Q gi|254780134|r 147 AVRQEYVA-INPCL 159 (348) Q Consensus 147 a~~~~~i~-~NP~~ 159 (348) |+..|++. .||+. T Consensus 81 Ai~~g~~~~~NPA~ 94 (106) T 2khv_A 81 ATVRGYREGDNPAR 94 (106) T ss_dssp HHHHTSSCSCCTTS T ss_pred HHHCCCCCCCCHHH T ss_conf 99939867898276 No 23 >2v6e_A Protelemorase; hairpin telomere, hydrolase, resolvase, protelomerase, DNA distortion; 3.20A {Klebsiella phage PHIKO2} Probab=97.30 E-value=0.00019 Score=46.04 Aligned_cols=133 Identities=14% Similarity=0.134 Sum_probs=73.3 Q ss_pred HHHHHHHHHHHCCCCCCCCCCC-CCCEEEEECCCCCC-CCCHH-----HHHHCCH---HHHHHHHHH---HCCCCCC-CC Q ss_conf 8999989898618873100256-64014430233211-33102-----4331121---689999964---2013322-11 Q gi|254780134|r 191 QPRLAFEFLLYSGLRCSDSCRA-GVQHLQNNIFSIKT-QKTGT-----IITVELP---DGFMKLLAM---TPIGKET-FF 256 (348) Q Consensus 191 ~~~~~~~l~~~TG~R~~Ei~~L-~~~did~~~i~~~~-~Kt~~-----~~~vpl~---~~l~~~l~~---~~~~~~~-~~ 256 (348) ...+++.|++.||-|..||+.- .....+...+.+.. .|++. +..||.. +.+...++. .+..... -+ T Consensus 281 ~~~LAiGLAlATGRR~~EILktg~F~~s~~ysLlFsGQaKKr~~~e~~syEIPTLidAdlVIkAikrLR~l~~~e~l~~l 360 (558) T 2v6e_A 281 MAPLAFALAALSGRRMIEIMLQGEFSVAGKYTVTFLGQAKKRSEDKGISRKIYTLCDATLFVSLVNELRSCPAAADFDEV 360 (558) T ss_dssp GHHHHHHHHHHHCCCHHHHHTTCEEEECSSSEEEEECCTTCCCCSCCCEEEEECSSCHHHHHHHHHHHTTSGGGTTHHHH T ss_pred HHHHHHHHHHHHCCCHHHHHHCCEEEECCCCEEEEECHHHCCCCCCCCCEEEEEECCHHHHHHHHHHHHHCCCHHCCCCC T ss_conf 89999999999276488764005565479846998403310689987754643203589999999999837102202442 Q ss_pred CC--CCCCCCCH-HH----HHHHHHHHHHHC--CCCCCCCHHHHHHHHHHHH---------CCCCHHH-HHHHHCCCCHH Q ss_conf 22--24577587-78----999999999983--8899814026999999998---------4899889-99996499989 Q gi|254780134|r 257 IN--NDKQKMNA-TQ----FSIWFKAKATKA--GVNKSAHGVRKFSATISAD---------AGATAHE-LMATYGWKTVD 317 (348) Q Consensus 257 ~~--~~g~~~~~-~~----~~~~~~~~~~~a--gi~~~~H~lRht~at~l~~---------~G~~~~~-i~~~lGHss~~ 317 (348) .. ..+..... .. +...++.+.+.. ....++|++|+-++-...+ +++++.. ++.+|||.+.+ T Consensus 361 ~~~~~~~~~~~~N~~IN~~~a~~ln~~~k~lf~~~e~s~~DlRaIYa~IAf~~Ff~~d~r~k~vden~F~k~VLGHedid 440 (558) T 2v6e_A 361 IKGYGENDTRSENGRINAILATAFNPWVKTFLGDDRRVYKDSRAIYARIAYEMFFRVDPRWKNVDEDVFFMEILGHDDEN 440 (558) T ss_dssp TTCSSTTCCCCHHHHHHHHHHHHHHHHHHHHHSSSSCCTTHHHHHHHHHHHHHHTTTSGGGTTSCHHHHHHHHHTCSSTT T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCHHHHHHHHHHHHHCCCCHHHCCCCHHHHHHHHHCCCCHH T ss_conf 22223211277899999999999999999847886330043066887666765435532312687999999985789614 Q ss_pred HHHHHH Q ss_conf 999999 Q gi|254780134|r 318 QAETYT 323 (348) Q Consensus 318 ~t~~Y~ 323 (348) |+.+|. T Consensus 441 Tq~hY~ 446 (558) T 2v6e_A 441 TQLHYK 446 (558) T ss_dssp GGGSSC T ss_pred HHHHHH T ss_conf 444565 No 24 >3m4a_A Putative type I topoisomerase; type IB, topib, protein-DNA complex, isomerase-DNA complex; HET: DNA; 1.65A {Deinococcus radiodurans} PDB: 2f4q_A* Probab=96.06 E-value=0.014 Score=33.80 Aligned_cols=127 Identities=13% Similarity=0.160 Sum_probs=76.0 Q ss_pred HHHHHHHHCCCCCC-----------CCCCCCCCEE--EEECCCCC-CCCCHHHHHHCCH-HHHHHHHHHH---CCCCCCC Q ss_conf 99898986188731-----------0025664014--43023321-1331024331121-6899999642---0133221 Q gi|254780134|r 194 LAFEFLLYSGLRCS-----------DSCRAGVQHL--QNNIFSIK-TQKTGTIITVELP-DGFMKLLAMT---PIGKETF 255 (348) Q Consensus 194 ~~~~l~~~TG~R~~-----------Ei~~L~~~di--d~~~i~~~-~~Kt~~~~~vpl~-~~l~~~l~~~---~~~~~~~ 255 (348) +++.|+-.|.+|+| -++.|+..|| +++.+.+. ..|.|....+-+. +.+...|... +...... T Consensus 126 ~~v~Lld~~~iRVGne~Y~~en~SyGlTTLr~~HV~i~~~~i~~~F~GK~Gv~~~~~i~d~~l~~~l~~l~~~~g~~lf~ 205 (346) T 3m4a_A 126 LMTRLLHVARFRVGSDIYARQHKTYGLSTLRQRHVVVDGNTVTFRFKGKHGVSQHKATSDRTLAANMQKLLDLPGPWLFQ 205 (346) T ss_dssp HHHHHHHHHCCCCCCHHHHHHHCCCCGGGCBGGGEEEETTEEEEEEECGGGCEEEEEECCHHHHHHHHHHHTSCSSBSCE T ss_pred HHHHHHHHHCCCCCCCCCHHHCCCCCEEEEECCCEEEECCEEEEEEECCCCEEEEEEECCHHHHHHHHHHHHCCCCHHHH T ss_conf 99999998433068821012149815002100335886896999997688738887746889999999998457815331 Q ss_pred CCCCC-C--CCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH-----CCC-------------CHHHHHHHHCCC Q ss_conf 12224-5--77587789999999999838899814026999999998-----489-------------988999996499 Q gi|254780134|r 256 FINND-K--QKMNATQFSIWFKAKATKAGVNKSAHGVRKFSATISAD-----AGA-------------TAHELMATYGWK 314 (348) Q Consensus 256 ~~~~~-g--~~~~~~~~~~~~~~~~~~agi~~~~H~lRht~at~l~~-----~G~-------------~~~~i~~~lGHs 314 (348) |.... | .++++.-++..++..+. +.|..+||-..||.++. .+. .+.+++..|||+ T Consensus 206 ~~~~~~g~~~~v~s~dVN~YLk~~~g----~~TaKdFRTw~at~~~~~~L~~~~~~~s~~~~kk~i~~ai~~VA~~LgnT 281 (346) T 3m4a_A 206 TVDAGGGERRRIHSTELNAYLREVIG----PFTAKDFRTWGGTLLAAEYLAQQGTESSERQAKKVLVDCVKFVADDLGNT 281 (346) T ss_dssp EECCCC-CEEECCHHHHHHHHHHHHT----TSCHHHHHHHHHHHHHHHHHHHHCCCSSHHHHHHHHHHHHHHHHHHHTSC T ss_pred HCCCCCCCEECCCHHHHHHHHHHHCC----CCCHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCC T ss_conf 00156887101679999999998669----98731303435499999999836788998999999999999999984897 Q ss_pred CHHHHHHHHH Q ss_conf 9899999999 Q gi|254780134|r 315 TVDQAETYTK 324 (348) Q Consensus 315 s~~~t~~Y~~ 324 (348) ..-.-.-|++ T Consensus 282 paVcRksYI~ 291 (346) T 3m4a_A 282 PAVTRGSYIC 291 (346) T ss_dssp HHHHHHHTSC T ss_pred HHHHHHHCCC T ss_conf 5445564378 No 25 >2h7g_X DNA topoisomerase 1; type IB topoisomerase, DNA binding, protein-DNA complex, isomerase/DNA complex; HET: DNA; 1.90A {Variola virus} PDB: 2h7f_X* 3igc_A* 1a41_A Probab=91.53 E-value=0.33 Score=24.92 Aligned_cols=121 Identities=13% Similarity=0.094 Sum_probs=67.4 Q ss_pred HHHHHHHCCCCCC-----------CCCCCCCCEEE--EECCCCC-CCCCHHHHHHCC--HHHHHHHHHHHCCC-C-CCCC Q ss_conf 9898986188731-----------00256640144--3023321-133102433112--16899999642013-3-2211 Q gi|254780134|r 195 AFEFLLYSGLRCS-----------DSCRAGVQHLQ--NNIFSIK-TQKTGTIITVEL--PDGFMKLLAMTPIG-K-ETFF 256 (348) Q Consensus 195 ~~~l~~~TG~R~~-----------Ei~~L~~~did--~~~i~~~-~~Kt~~~~~vpl--~~~l~~~l~~~~~~-~-~~~~ 256 (348) ++.|+-.|.+|+| -+..|+..||. ++.|.+. ..|.|....+-+ .+.+...|...... + ..++ T Consensus 120 ~v~Lld~~~iRVGne~Ya~~N~SyGlTTLr~rHV~v~g~~i~f~F~GK~Gv~~~~~i~~d~~l~~~l~~~~~~~~~~~~l 199 (314) T 2h7g_X 120 FMLMETMFFIRFGKMKYLKENETVGLLTLKNKHIEISPDKIVIKFVGKDKVSHEFVVHKSNRLYKPLLKLTDDSSPEEFL 199 (314) T ss_dssp HHHHHHHHCCCCCCHHHHHHHCCCCSTTCBGGGEEEETTEEEEEEECGGGCEEEEEEETTSTTHHHHHHHCCTTCTTSBS T ss_pred HHHHHHHHCEECCCHHHHHCCCCCCEEEEECCCEEEECCEEEEEEECCCCCEEEEEECCCHHHHHHHHHHHHCCCCHHEE T ss_conf 99999862241577432220598150020101177879979999875888458999626589999999997557810157 Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHC--------CC-----------CHHHHHHHHCCCCHH Q ss_conf 22245775877899999999998388998140269999999984--------89-----------988999996499989 Q gi|254780134|r 257 INNDKQKMNATQFSIWFKAKATKAGVNKSAHGVRKFSATISADA--------GA-----------TAHELMATYGWKTVD 317 (348) Q Consensus 257 ~~~~g~~~~~~~~~~~~~~~~~~agi~~~~H~lRht~at~l~~~--------G~-----------~~~~i~~~lGHss~~ 317 (348) + .....+.++..++ ..+ .+..+||-..||.++.. .. -+.+++..|||+..- T Consensus 200 f----~~v~~~~vn~~l~----~~~--~taKdFRTw~at~~a~~~l~~~~~~~~~~~~~kk~i~~~i~~vA~~LgNTpaV 269 (314) T 2h7g_X 200 F----NKLSERKVYESIK----QFG--IRIKDLRTYGVNYTFLYNFWTNVKSISPLPSPKKLIALTIKQTAEVVGHTPSI 269 (314) T ss_dssp S----TTCCHHHHHHHHG----GGT--SCHHHHHHHHHHHHHHHHHHHHHHHCSSCCCHHHHHHHHHHHHHHHHTCCTTT T ss_pred E----EECCCHHHHHHHH----HCC--CHHHHHHHHCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHH T ss_conf 5----4446267899888----358--40788986462599999998516766756788999999999999983897555 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 270 cR~sYIhP 277 (314) T 2h7g_X 270 SKRAYMAT 277 (314) T ss_dssp HHHHSTHH T ss_pred HHHHCCCH T ss_conf 56745799 No 26 >2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA complex; HET: DNA; 2.27A {Leishmania donovani} Probab=81.27 E-value=2.1 Score=19.64 Aligned_cols=96 Identities=26% Similarity=0.307 Sum_probs=59.6 Q ss_pred HHHHHHHCCCCCC-----------CCCCCCCCEEE---EECCCCC-CCCCHHHH--HHCCHHHHHHHHHHHCC---CCCC Q ss_conf 9898986188731-----------00256640144---3023321-13310243--31121689999964201---3322 Q gi|254780134|r 195 AFEFLLYSGLRCS-----------DSCRAGVQHLQ---NNIFSIK-TQKTGTII--TVELPDGFMKLLAMTPI---GKET 254 (348) Q Consensus 195 ~~~l~~~TG~R~~-----------Ei~~L~~~did---~~~i~~~-~~Kt~~~~--~vpl~~~l~~~l~~~~~---~~~~ 254 (348) ++.|+-.|++|+| -++.|+..||. ++.+.+. ..|.|... .|...+.+...|..... .+.. T Consensus 280 av~LID~~alRvGnEkya~en~T~GltTLr~eHV~l~~~~~v~fdF~GK~gvr~~~~v~~d~~v~k~L~~~~~~k~pgd~ 359 (432) T 2b9s_A 280 AMYFIDRLALRVGNEKGEDEADTVGCCSLRVEHIQLMPDNIVRFDFLGKDSIRYQNDVAVLPEVYALLQRFTRRKSPGMD 359 (432) T ss_dssp HHHHHHHHCCCCCCCCCTTSCCCCCGGGCBGGGEEECTTSEEEEEEECGGGCEEEEEEECCHHHHHHHHHHHTTCCTTSB T ss_pred HHHHHHHHCCCCCCHHHHHCCCCEEECCCCHHHEEECCCCEEEEEECCCCCCEEEEEEECCHHHHHHHHHHHHCCCCHHH T ss_conf 99999973843488311002797844535475447648987999974776717999972378999999999756798376 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH Q ss_conf 112224577587789999999999838899814026999999998 Q gi|254780134|r 255 FFINNDKQKMNATQFSIWFKAKATKAGVNKSAHGVRKFSATISAD 299 (348) Q Consensus 255 ~~~~~~g~~~~~~~~~~~~~~~~~~agi~~~~H~lRht~at~l~~ 299 (348) +| ..+++..++..++. .+-..|..+||-..||.++. T Consensus 360 LF-----~~I~s~~vN~yLk~----~~~g~TAKdFRTwnAS~tl~ 395 (432) T 2b9s_A 360 IF-----DQLNPTQLNDHLKS----FMDGLSAKVFRTYNASITLD 395 (432) T ss_dssp TT-----TTCCHHHHHHHHTT----TSTTCCTTHHHHHHHHHHHH T ss_pred HC-----CCCCHHHHHHHHHH----HCCCCCEECCCCCHHHHHHH T ss_conf 20-----73898999999998----68999822621434699999 No 27 >1flo_A FLP recombinase; tyrosine recombinase, protein-DNA complex, holliday- junction, domain-swapping, ligase, lyase/DNA complex; 2.65A {Saccharomyces cerevisiae} SCOP: a.60.9.1 d.163.1.1 PDB: 1m6x_A* 1p4e_A* Probab=77.10 E-value=2.9 Score=18.81 Aligned_cols=230 Identities=12% Similarity=0.115 Sum_probs=106.1 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHH-HCCCCH----HHCCHHHHHHHHHHHCC-------------CHHHHHHHHH Q ss_conf 99983554356978899999999999999-569995----89699999998875159-------------9789999999 Q gi|254780134|r 77 EYRKSAHWGSLAVNSRISFESYFDQIIRK-SGDFDY----RKITTKHIRSGVESRKH-------------TPSSAIQFLT 138 (348) Q Consensus 77 ~y~~~~~~~~l~~~T~~~~~~~~~~~~~~-~g~~~l----~~it~~~i~~~~~~~~~-------------~~~t~n~~~~ 138 (348) .|+........+-+|...|++.+..=+.+ .++..+ .-=.+.++++.+++... .+.+...+.+ T Consensus 41 ~~m~~~~~t~iK~sTF~kY~~~I~~sl~fD~~~k~V~F~YhLk~~~~L~~~L~~a~~p~~F~I~~~k~~~~~~~~~~~~s 120 (422) T 1flo_A 41 CWMITHNGTAIKRATFMSYNTIISNSLSFDIVNKSLQFKYKTQKATILEASLKKLIPAWEFTIIPYYGQKHQSDITDIVS 120 (422) T ss_dssp HHHHHTTTCCCBHHHHHHHHHHHHTTCEEETTTTEEEEECSCSCHHHHHHHHHHHSTTCEEEEECCC-----CCHHHHHH T ss_pred HHHHHCCCCCHHHHHHHHHHHHHHHCEEEECCCCEEEEEEECCCHHHHHHHHHHHCCCEEEEEECCCCCCCCCHHHHHHH T ss_conf 45200044002088899999987412376247867999996288899999999854875999813544345660787888 Q ss_pred HHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCCHHHHHHHHH-------HHCCCCH----HHHHHHHHHHCCCC Q ss_conf 9999996445520010566510--346432444421165234456666-------4037808----99998989861887 Q gi|254780134|r 139 SMRVLFKWAVRQEYVAINPCLS--VERPKRKTEGIRPWTKEDMQQFKS-------FWSEGSQ----PRLAFEFLLYSGLR 205 (348) Q Consensus 139 ~l~~~~~~a~~~~~i~~NP~~~--v~~~~~~~~~~~~~t~~ei~~~~~-------~~~~~~~----~~~~~~l~~~TG~R 205 (348) .+..-+.-- .+.-..|-..+ .... .-+.++|..|.. .-..... .+.++.+.++-+|| T Consensus 121 ~~~~~~~~~--~~~~~g~~~~~~~~~~l--------~~~~e~Iw~~v~~v~~sie~~t~~~straey~flll~Tf~NCcR 190 (422) T 1flo_A 121 SLQLQFESS--EEADKGNSHSKKMLKAL--------LSEGESIWEITEKILNSFEYTSRFTKTKTLYQFLFLATFINCGR 190 (422) T ss_dssp HHHHHHHC-------CTTHHHHHHHHHH--------HHSSCCHHHHHHHHHHTTTTTCSSHHHHHHHHHHHHHHHHHTCC T ss_pred HHHHHHHCC--CCCCCCCCHHHHHHHHH--------HHCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHC T ss_conf 999884033--21133320268898887--------65031699999999999989854722889999999999873302 Q ss_pred CCCCCCCCCCEEE---E----ECC--CCCCCCCHHHHHH---CCH---HHHH---HHHHHH-CCCCCCC-CCCC----CC Q ss_conf 3100256640144---3----023--3211331024331---121---6899---999642-0133221-1222----45 Q gi|254780134|r 206 CSDSCRAGVQHLQ---N----NIF--SIKTQKTGTIITV---ELP---DGFM---KLLAMT-PIGKETF-FINN----DK 261 (348) Q Consensus 206 ~~Ei~~L~~~did---~----~~i--~~~~~Kt~~~~~v---pl~---~~l~---~~l~~~-~~~~~~~-~~~~----~g 261 (348) .+|+-.+...-++ + ..+ .++.+||++++.| |+. +.|+ .+|... |.....- ..+. .. T Consensus 191 ~sDLKN~DP~TFeiv~Nk~LG~ilRalV~ETKTrk~RfIyFFPv~gr~DpLlAL~d~l~~~~Pv~K~~srtsn~~s~~Q~ 270 (422) T 1flo_A 191 FSDIKNVDPKSFKLVQNKYLGVIIQCLVTETKTSVSRHIYFFSARGRIDPLVYLDEFLRNSEPVLKRVNRTGNSSSNKQE 270 (422) T ss_dssp HHHHHTCEEEEEEEECCTTTSCEEEEEECSCTTSCCEEEEECCCSSSCCHHHHHHHHHHHCCCEECCCCBTTCCSCCCCC T ss_pred CHHCCCCCCCCEEEECCCCHHHHEEEEEECCCCCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHH T ss_conf 00024689331576235420002256740355665204999755898772687999987348865544545666322567 Q ss_pred CCCCHHHH----HHHHHHHHHHC--CCCCC--CCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHH Q ss_conf 77587789----99999999983--88998--14026999999998489988999996499989 Q gi|254780134|r 262 QKMNATQF----SIWFKAKATKA--GVNKS--AHGVRKFSATISADAGATAHELMATYGWKTVD 317 (348) Q Consensus 262 ~~~~~~~~----~~~~~~~~~~a--gi~~~--~H~lRht~at~l~~~G~~~~~i~~~lGHss~~ 317 (348) -.+-.+++ .+.+.+-.... +|++. .|=-||.-+|.|...+.+ ..+.-+..||+.. T Consensus 271 yQlLrdsLv~~YdRFl~K~~~e~iF~I~nGPKSHlGRHLM~SyLs~~~lg-~~vs~~GNWS~~r 333 (422) T 1flo_A 271 YQLLKDNLVRSYNKALKKNAPYSIFAIKNGPKSHIGRHLMTSFLSMKGLT-ELTNVVGNWSDKR 333 (422) T ss_dssp EESSCTTHHHHHHHHHHHHCSSGGGGSTTCCSTTHHHHHHHHHHHHTTCT-TSHHHHHTCCCC- T ss_pred HHHHHHHHHHHHHHHHHHCCCCCEECCCCCCHHHHHHHHHHHHHCCCCCC-CEECCCCCCCHHH T ss_conf 88888888887889997378875440578966777788999884305677-5111467730134 No 28 >3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} Probab=34.66 E-value=16 Score=13.93 Aligned_cols=42 Identities=17% Similarity=0.044 Sum_probs=23.4 Q ss_pred CCCEEEECCCCCEEEEEEE-CCC--CEEECCCCCCHHHHHHHHHH Q ss_conf 9818962289938999970-895--65755889998899999999 Q gi|254780134|r 9 PFVTKERTRHGKIIYYFRK-GHG--RRIRLPYPHESTFIPAYMSA 50 (348) Q Consensus 9 ~~v~~~~~r~G~~~~~~r~-~~~--~~~~~~~~~~~~~~~~~~~a 50 (348) .+++-....+|...|+||. ..| +++.++....-.+.+|...+ T Consensus 24 ~GL~l~v~p~G~k~w~~ry~~~gk~~~~~LG~yP~~sL~~AR~~a 68 (88) T 3jtz_A 24 HGLYLLVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQR 68 (88) T ss_dssp TTEEEEECTTSCEEEEEEEEETTEEEEEEEEETTTSCHHHHHHHH T ss_pred CCEEEEEEECCCEEEEEEEEECCCEEEEECCCCCCCCHHHHHHHH T ss_conf 981999970995899999997890789976289996799999999 No 29 >2bdd_A ACP-synthase; structural genomics, structural genomics consortium, SGC, transferase; 2.28A {Plasmodium yoelii yoelii} Probab=33.97 E-value=17 Score=13.85 Aligned_cols=47 Identities=21% Similarity=0.140 Sum_probs=32.4 Q ss_pred HHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCHHHHHHHHHHHCC Q ss_conf 89861887310025664014430233211331024331121689999964201 Q gi|254780134|r 198 FLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVELPDGFMKLLAMTPI 250 (348) Q Consensus 198 l~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vpl~~~l~~~l~~~~~ 250 (348) =++.||++..-..++.|.||. +.....|++ .+-++..+.+++..... T Consensus 96 KALGtG~~~~~~~gi~~~DIe-----V~~~~~GkP-~l~l~g~a~~~~~~~gi 142 (182) T 2bdd_A 96 KSMGRGLSSISKYGLSMNDIE-----IKNDKYGKP-HVYLYGKAKKVAYEMGI 142 (182) T ss_dssp HHTTC---------CCGGGEE-----EEECTTSCE-EEEECHHHHHHHHHHTC T ss_pred HHHCCCCCCCCCCCCCEEEEE-----EEECCCCCE-EEEECHHHHHHHHHCCC T ss_conf 874356555566884404899-----998899990-89989899999998699 No 30 >1hmj_A RPB5, protein (subunit H); RNA polymerase, archaea; NMR {Methanocaldococcus jannaschii} SCOP: d.78.1.1 Probab=32.19 E-value=13 Score=14.58 Aligned_cols=45 Identities=16% Similarity=0.099 Sum_probs=29.2 Q ss_pred CCCCCHHHHHHHHHHHCCCCHHHHHH-----HHHHHCCCCCCCCCCCCCCE Q ss_conf 21165234456666403780899998-----98986188731002566401 Q gi|254780134|r 171 IRPWTKEDMQQFKSFWSEGSQPRLAF-----EFLLYSGLRCSDSCRAGVQH 216 (348) Q Consensus 171 ~~~~t~~ei~~~~~~~~~~~~~~~~~-----~l~~~TG~R~~Ei~~L~~~d 216 (348) +..++++|...++........ .+.. -++-|.|++.|+++.+.+.. T Consensus 12 H~~l~~ee~~~il~~y~i~~~-qLP~I~~~DPva~~~g~~~GdiikI~R~S 61 (78) T 1hmj_A 12 HEIVPKEEVEEILKRYNIKIQ-QLPKIYEDDPVIQEIGAKEGDVVRVIRKS 61 (78) T ss_pred CEECCHHHHHHHHHHHCCCHH-HCCEECCCCHHHHHHCCCCCCEEEEEECC T ss_conf 388799999999998199988-99921361997897389999489999748 No 31 >2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid} Probab=31.40 E-value=18 Score=13.58 Aligned_cols=35 Identities=17% Similarity=0.200 Sum_probs=28.0 Q ss_pred CHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHH Q ss_conf 4026999999998489988999996499989999999 Q gi|254780134|r 287 HGVRKFSATISADAGATAHELMATYGWKTVDQAETYT 323 (348) Q Consensus 287 H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~ 323 (348) -|++ +.+..|+..|.+..+|+.+|| -|+.-..+|. T Consensus 18 DD~~-sv~hELa~~gysvqqIa~~LG-VsvrKv~~YL 52 (55) T 2x48_A 18 DDLV-SVAHELAKMGYTVQQIANALG-VSERKVRRYL 52 (55) T ss_dssp HHHH-HHHHHHHHTTCCHHHHHHHHT-SCHHHHHHHH T ss_pred CHHH-HHHHHHHHCCCCHHHHHHHHC-HHHHHHHHHH T ss_conf 4099-999999984872999998846-1199999987 No 32 >2qg8_A Acyl carrier protein synthase PY06285; malaria, 3'5'ADP, SGC, structural genomics consortium, transferase; HET: A3P; 2.00A {Plasmodium yoelii yoelii} Probab=27.69 E-value=21 Score=13.18 Aligned_cols=46 Identities=22% Similarity=0.166 Sum_probs=32.2 Q ss_pred HHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCHHHHHHHHHHHCC Q ss_conf 9861887310025664014430233211331024331121689999964201 Q gi|254780134|r 199 LLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVELPDGFMKLLAMTPI 250 (348) Q Consensus 199 ~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vpl~~~l~~~l~~~~~ 250 (348) ++.||.+...-.++.|.||. +.....|++ .|-++..+.+++..... T Consensus 78 AlGtg~~~~~~~gi~~~dIe-----I~~~~~G~P-~l~l~g~a~~~~~~~gi 123 (163) T 2qg8_A 78 SMGRGLSSISKYGLSMNDIE-----IKNDKYGKP-HVYLYGKAKKVAYEMGI 123 (163) T ss_dssp HTTCCBC-----CBCGGGEE-----EEECTTSCE-EEEECHHHHHHHHHTTC T ss_pred HHCCCCCCCCCCCCCEEEEE-----EEECCCCCC-EEEECHHHHHHHHHCCC T ss_conf 75356654567885315899-----998899992-89989899999998699 No 33 >1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C Probab=24.97 E-value=24 Score=12.86 Aligned_cols=31 Identities=16% Similarity=0.226 Sum_probs=24.1 Q ss_pred HHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHH Q ss_conf 99999984899889999964999899999999 Q gi|254780134|r 293 SATISADAGATAHELMATYGWKTVDQAETYTK 324 (348) Q Consensus 293 ~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~ 324 (348) .|-.|.++|.+..+|+..+| -|..|.-+|.. T Consensus 13 ~a~~l~~~G~s~~~iA~~~g-Vsr~TlYrylp 43 (52) T 1jko_C 13 QISRLLEKGHPRQQLAIIFG-IGVSTLYRYFP 43 (52) T ss_dssp HHHHHHHTTCCHHHHHHTTS-CCHHHHHHHSC T ss_pred HHHHHHHCCCCHHHHHHHHC-CCHHHHHHHCC T ss_conf 99999997898999999979-79999999851 No 34 >1dzf_A DNA-directed RNA polymerases I, II, and III 27 KD polypeptide; RNA polymerase subunit; 1.9A {Saccharomyces cerevisiae} SCOP: c.52.3.1 d.78.1.1 PDB: 1i3q_E 1i50_E 1i6h_E 1k83_E* 1nik_E 1nt9_E 1pqv_E 1r5u_E 1r9s_E* 1r9t_E* 1sfo_E* 1twa_E* 1twc_E* 1twf_E* 1twg_E* 1twh_E* 1wcm_E 1y1v_E 1y1w_E 1y1y_E ... Probab=24.50 E-value=9.4 Score=15.47 Aligned_cols=45 Identities=11% Similarity=0.131 Sum_probs=28.7 Q ss_pred CCCCCHHHHHHHHHHHCCCCHHHHH-----HHHHHHCCCCCCCCCCCCCCE Q ss_conf 2116523445666640378089999-----898986188731002566401 Q gi|254780134|r 171 IRPWTKEDMQQFKSFWSEGSQPRLA-----FEFLLYSGLRCSDSCRAGVQH 216 (348) Q Consensus 171 ~~~~t~~ei~~~~~~~~~~~~~~~~-----~~l~~~TG~R~~Ei~~L~~~d 216 (348) +..++++|...++........+ +. =-++.|.|+|+|+++.+.+.. T Consensus 153 h~~l~~ee~~~~~~~y~~~~~~-lP~i~~~Dpva~~~g~~~g~v~kI~R~s 202 (215) T 1dzf_A 153 HIRLSSDEKRELLKRYRLKESQ-LPRIQRADPVALYLGLKRGEVVKIIRKS 202 (215) T ss_dssp EEECCHHHHHHHHHHTTCCGGG-SCEECTTCHHHHHHTCCTTCEEEEECTT T ss_pred EEECCHHHHHHHHHHHCCCHHH-CCCCCCCCHHHHHCCCCCCCEEEEEEEC T ss_conf 0881778999999995999778-8920462975663189899589999718 No 35 >2waq_H DNA-directed RNA polymerase RPO5 subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_H 2pmz_H 3hkz_H Probab=23.18 E-value=11 Score=15.10 Aligned_cols=45 Identities=7% Similarity=-0.039 Sum_probs=28.5 Q ss_pred CCCCCHHHHHHHHHHHCCCCHHHHHH-----HHHHHCCCCCCCCCCCCCCE Q ss_conf 21165234456666403780899998-----98986188731002566401 Q gi|254780134|r 171 IRPWTKEDMQQFKSFWSEGSQPRLAF-----EFLLYSGLRCSDSCRAGVQH 216 (348) Q Consensus 171 ~~~~t~~ei~~~~~~~~~~~~~~~~~-----~l~~~TG~R~~Ei~~L~~~d 216 (348) +..++++|...+++....... .+.. -++.|.|++.|+++.+.+.. T Consensus 20 H~il~~eE~~~ll~~y~i~~~-qLP~I~~~DPva~~~g~k~GdvvkI~R~s 69 (84) T 2waq_H 20 HEVLSIDEAYKILKELGIRPE-QLPWIRASDPVARSINAKPGDIIRIIRKS 69 (84) T ss_dssp EEECCHHHHHHHHHHHTCCGG-GSCCCCSSSHHHHHHTCCTTSCEEEEEEE T ss_pred CEECCHHHHHHHHHHHCCCHH-HCCEECCCCHHHHHHCCCCCCEEEEEECC T ss_conf 288599999999998659987-89800461986786289889789999758 No 36 >3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum} Probab=22.57 E-value=26 Score=12.56 Aligned_cols=43 Identities=9% Similarity=-0.129 Sum_probs=22.7 Q ss_pred CCCEEEECCCCCEEEEEEE-CCC--CEEECCCCCCHHHHHHHHHHH Q ss_conf 9818962289938999970-895--657558899988999999998 Q gi|254780134|r 9 PFVTKERTRHGKIIYYFRK-GHG--RRIRLPYPHESTFIPAYMSAL 51 (348) Q Consensus 9 ~~v~~~~~r~G~~~~~~r~-~~~--~~~~~~~~~~~~~~~~~~~a~ 51 (348) .+++-....+|...|+|+. ..| +.+.++....-.+.+|...+. T Consensus 24 ~GL~lrV~~~G~K~f~~ry~~~gk~~~i~LG~yp~~sL~~AR~~a~ 69 (108) T 3ju0_A 24 FGMHLLVHPNGSKYWRLSYRFEKKQRLLALGVYPAVSLADARQRRD 69 (108) T ss_dssp TTEEEEECTTSCEEEEEEEEETTEEEEEEEEEETTSCHHHHHHHHH T ss_pred CCEEEEEECCCCEEEEEEEEECCCCEEEEECCCCCCCHHHHHHHHH T ss_conf 9459999739968999999867950477416888858999999999 No 37 >3h0g_E DNA-directed RNA polymerases I, II, and III subunit rpabc1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Probab=22.22 E-value=11 Score=15.00 Aligned_cols=47 Identities=6% Similarity=0.005 Sum_probs=28.9 Q ss_pred CCCCCCHHHHHHHHHHHCCCCHHH-HH---HHHHHHCCCCCCCCCCCCCCE Q ss_conf 421165234456666403780899-99---898986188731002566401 Q gi|254780134|r 170 GIRPWTKEDMQQFKSFWSEGSQPR-LA---FEFLLYSGLRCSDSCRAGVQH 216 (348) Q Consensus 170 ~~~~~t~~ei~~~~~~~~~~~~~~-~~---~~l~~~TG~R~~Ei~~L~~~d 216 (348) .+..++++|...++.........- .+ =-++.|.|+|+|+++.+.+.. T Consensus 147 ~h~~l~~ee~~~~l~~~~~~~~~lP~i~~~Dp~~~~~g~~~g~v~kI~R~s 197 (210) T 3h0g_E 147 KHILLSPDEKKELLDRYKLRETQLPRIQLADPVARYLGLKRGEVVKIVRRS 197 (210) T ss_dssp CEECCCHHHHHHHHHHTCCCTTTSCCCCTTCHHHHHHTCCTTCEEEEECCC T ss_pred CEEEECHHHHHHHHHHHCCCHHHCCCCCCCCHHHHHCCCCCCCEEEEEECC T ss_conf 459807899999999827997778843563975661079899589999738 No 38 >1e0m_A Wwprototype; SH3 prototype, protein design, de novo protein; NMR {} SCOP: k.22.1.1 Probab=21.50 E-value=28 Score=12.43 Aligned_cols=20 Identities=40% Similarity=0.713 Sum_probs=16.1 Q ss_pred CCCCCCCEEEECCCCCEEEE Q ss_conf 88879818962289938999 Q gi|254780134|r 5 LRLPPFVTKERTRHGKIIYY 24 (348) Q Consensus 5 ~~~p~~v~~~~~r~G~~~~~ 24 (348) ..||++=....+.+|++||+ T Consensus 2 ~~LP~GWe~~~d~~G~~Yyi 21 (37) T 1e0m_A 2 MGLPPGWDEYKTHNGKTYYY 21 (37) T ss_dssp CCSCTTEEEEECSSCCEEEE T ss_pred CCCCCCCEEEECCCCCEEEE T ss_conf 87889826889899999988 Done!