Query psy1361
Match_columns 1274
No_of_seqs 397 out of 1500
Neff 5.3
Searched_HMMs 29240
Date Fri Aug 16 15:30:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1361.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/1361hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3iay_A DNA polymerase delta ca 100.0 1.7E-95 6E-100 922.4 50.4 420 560-1017 472-910 (919)
2 2gv9_A DNA polymerase; polymer 100.0 9.1E-85 3.1E-89 839.0 32.3 441 561-1019 558-1139(1193)
3 1qht_A Protein (DNA polymerase 100.0 1.3E-84 4.3E-89 814.4 23.7 422 560-1022 331-755 (775)
4 3k59_A POL II, DNA polymerase 100.0 8.9E-80 3.1E-84 767.3 27.3 398 560-1023 356-779 (786)
5 3qex_A DNA polymerase, GP43; d 100.0 5.7E-75 1.9E-79 727.8 23.5 428 560-1026 345-898 (903)
6 1s5j_A DNA polymerase I; repli 100.0 3.1E-75 1.1E-79 734.7 14.9 426 560-1022 398-829 (847)
7 3flo_B DNA polymerase alpha ca 100.0 2.5E-44 8.5E-49 383.5 13.7 177 1053-1238 9-205 (206)
8 2py5_A DNA polymerase; protein 99.8 1.1E-19 3.9E-24 221.2 10.4 206 624-860 224-534 (575)
9 1n5g_A 38-MER of DNA polymeras 98.2 2.7E-08 9.2E-13 79.2 -4.9 36 1133-1168 1-38 (38)
10 1k0p_A DNA polymerase alpha ca 96.8 7.4E-05 2.5E-09 56.8 -2.3 29 1135-1163 1-31 (31)
11 1noy_A Protein (DNA polymerase 95.3 0.0054 1.9E-07 71.5 2.4 41 560-602 342-382 (388)
12 1s5j_A DNA polymerase I; repli 66.6 6.1 0.00021 50.6 6.5 130 380-537 12-143 (847)
13 3k59_A POL II, DNA polymerase 43.8 7.7 0.00026 49.3 1.8 121 384-536 8-132 (786)
14 2d74_B Translation initiation 20.4 94 0.0032 31.7 4.7 40 1115-1160 90-131 (148)
No 1
>3iay_A DNA polymerase delta catalytic subunit; protein-DNA complex, DNA replication, DNA-BI DNA-directed DNA polymerase, exonuclease, hydrolase; HET: DNA DOC DCP; 2.00A {Saccharomyces cerevisiae}
Probab=100.00 E-value=1.7e-95 Score=922.43 Aligned_cols=420 Identities=28% Similarity=0.443 Sum_probs=377.1
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.++++|+|++|.+++++|++.|+|++|+|+||++|||+|++... .+..+|+||+|++|++|+|
T Consensus 472 ~elArl~Gi~~~~vl~rG~qi~ves~Llr~a~~~~~ilP~~~~~-----------------~~~~~y~Gg~V~eP~~G~y 534 (919)
T 3iay_A 472 TEMARVTGVPFSYLLARGQQIKVVSQLFRKCLEIDTVIPNMQSQ-----------------ASDDQYEGATVIEPIRGYY 534 (919)
T ss_dssp HHHHHHHCCCHHHHHHSCHHHHHHHHHHHHHHHTTEECBCCCCC-----------------CCSSCCCCCCBCCCCCEEE
T ss_pred HHHHHHcCCCHHHhhcccchHHHHHHHHHHHhhCCeeCCCcccc-----------------cccccCCCCEEecCCCCce
Confidence 57899999999999999999999999999999999999987521 1246799999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccC-------CCcccccccc--CCcccccCCCcHHHHHHHHHHHHHHHHH
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQ-------DSDITTLCEY--LPEHQVDTGILPSEIKKLVESRRQVKAL 710 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~-------~~~~~~ip~~--~~~~~~~~GILP~iL~~Lle~R~~vK~~ 710 (1274)
++||++|||+|||||||++|||||||+++.... +++....|.+ |...+.+.||||++|+.|++.|+++|+.
T Consensus 535 ~~pV~~lDF~SLYPSIi~~~Nlc~~Tl~~~~~~~~~~~~~~~~~~~~p~g~~f~~~~~~~gilp~~l~~ll~~R~~~K~~ 614 (919)
T 3iay_A 535 DVPIATLDFNSLYPSIMMAHNLCYTTLCNKATVERLNLKIDEDYVITPNGDYFVTTKRRRGILPIILDELISARKRAKKD 614 (919)
T ss_dssp CSCEEEEEETTHHHHHHHHTTCSGGGEECHHHHHHTTCCBTTTEEECTTSCEEECTTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred eccEEEEEecccchHHHHhcCcCcccccccchhhhcCCCCCcceeeCCCCcEEeccCCCCCchHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999875321 0111222331 3334568999999999999999999999
Q ss_pred hcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhc---------Cccce
Q psy1361 711 MKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENL---------NYEVI 781 (1274)
Q Consensus 711 mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~---------g~~VI 781 (1274)
||+ ..+|.++.+||.+|+|||++|||+|||+|++++||||.++|++||+.||++|++|++++|+. |++||
T Consensus 615 mk~-~~d~~~~~~ld~~Q~AlKi~~NS~YG~~G~~~~r~~~~~iA~siT~~GR~~l~~t~~~ie~~~~~~~g~~~~~~Vi 693 (919)
T 3iay_A 615 LRD-EKDPFKRDVLNGRQLALKISANSVYGFTGATVGKLPCLAISSSVTAYGRTMILKTKTAVQEKYCIKNGYKHDAVVV 693 (919)
T ss_dssp HHT-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTCSSSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHSSGGGTCSSCCEEE
T ss_pred Hhh-cCChHHHHHHHHHHHhhcccccccccccccccCccCCHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCCCCeEEE
Confidence 998 57899999999999999999999999999999999999999999999999999999999985 89999
Q ss_pred eccccceeeecCCCCHHHHHHHHHHHHHHHhhcC-ccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecce
Q psy1361 782 YGDTDSLMISCNVNDYDSVFKIGNQIKSECNKLY-KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVD 860 (1274)
Q Consensus 782 YGDTDSImI~~~~~d~eea~kig~eI~~~VN~~~-~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle 860 (1274)
|||||||||+++..+.++++++|++++++||+.+ .+|+||+|++|.++||++||||||+.+++. ++ ..++++||+|
T Consensus 694 YGDTDSvfv~~~~~~~~~~~~~g~~~~~~v~~~~~~~i~le~E~vy~~~ll~~KKrYag~~~~~~-~~--~~~~~~KGie 770 (919)
T 3iay_A 694 YGDTDSVMVKFGTTDLKEAMDLGTEAAKYVSTLFKHPINLEFEKAYFPYLLINKKRYAGLFWTNP-DK--FDKLDQKGLA 770 (919)
T ss_dssp ECBSSEEEEECSCSCHHHHHHHHHHHHHHHHTTSCTTCCEEEEEEEEEEEEEETTEEEEEEESSS-SS--CCEEEEESSG
T ss_pred EEcCCeeEEEcCCCCHHHHHHHHHHHHHHHHHhCCCCEEEEEeeeehhhhhhcccceEEEEeccC-CC--CceEEEEeEE
Confidence 9999999999999999999999999999999987 489999999999999999999999987743 21 2367999999
Q ss_pred eecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCch
Q psy1361 861 VVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALP 940 (1274)
Q Consensus 861 ~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~P 940 (1274)
+||||||+|+|++++++|+.||.+++ . +.++++++++..+|++|++|+++|+|+|+|+| +|+++ +|
T Consensus 771 ~vRrD~~~~~k~~~~~~l~~ll~~~~-----~----~~~~~~~~~~~~~l~~~~~~~~~lvi~k~l~k---~Y~~~--~p 836 (919)
T 3iay_A 771 SVRRDSCSLVSIVMNKVLKKILIERN-----V----DGALAFVRETINDILHNRVDISKLIISKTLAP---NYTNP--QP 836 (919)
T ss_dssp GGCTTSCHHHHHHHHHHHHHHHTTCC-----H----HHHHHHHHHHHHHHHTTCSCGGGGCEEEECCS---CCSSC--CH
T ss_pred EEeCCchHHHHHHHHHHHHHHHcCCC-----H----HHHHHHHHHHHHHHHcCCCCHHHeEEeeeccc---CCCCC--Ch
Confidence 99999999999999999999999998 4 45667888889999999999999999999999 89853 79
Q ss_pred HHHHHHHHhhhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCC
Q psy1361 941 HVQVALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGT 1017 (1274)
Q Consensus 941 HV~vAlrl~~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~ 1017 (1274)
||+||+||+++.|..+++||+|+|||+ + ++.++.+||++|.++.. ++++||++|||++||+||+.|||+||.|+
T Consensus 837 hv~~A~r~~~~~~~~~~~G~rI~YVi~-g-~~~~~~~ra~~p~~~~~-~~~~iD~~yYi~~qi~ppl~Ri~~~i~g~ 910 (919)
T 3iay_A 837 HAVLAERMKRREGVGPNVGDRVDYVII-G-GNDKLYNRAEDPLFVLE-NNIQVDSRYYLTNQLQNPIISIVAPIIGD 910 (919)
T ss_dssp HHHHHHHHHHHHSCCCCTTSEEEEEEB-C-SSSCGGGCEECHHHHHH-TTCCBCHHHHHHHTTHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHHhcCCCCCCCCEEEEEEE-C-CCCchhhhccCHHHHhc-cCCCCCHHHHHHhccHHHHHHHHHHhcCC
Confidence 999999998755889999999999999 4 66678999999999874 57999999999999999999999999996
No 2
>2gv9_A DNA polymerase; polymerase alpha fold, transferase; HET: DNA; 2.68A {Human herpesvirus 1} PDB: 1dml_B*
Probab=100.00 E-value=9.1e-85 Score=838.98 Aligned_cols=441 Identities=24% Similarity=0.436 Sum_probs=336.2
Q ss_pred hhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCcc----------C-Ccc--------cccccc----
Q psy1361 561 RITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKK----------E-GEE--------TGEANK---- 617 (1274)
Q Consensus 561 qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~----------~-~~~--------d~~~~~---- 617 (1274)
++++|+|++|+++|++|++.|+|++|||++|++|||+|++......+ . .++ +.+...
T Consensus 558 elarl~gi~~~~vl~~G~~irves~Ll~~a~~~~~ilP~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 637 (1193)
T 2gv9_A 558 AVARLAGINITRTIYDGQQIRVFTCLLRLADQKGFILPDTQGRFRGAGGEAPKRPAAAREDEERPEEEGEDEDEREEGGG 637 (1193)
T ss_dssp HHHHHHTSCGGGTTSSCSTHHHHHHHHHHHHHHTEECBCCC---------------------------------------
T ss_pred HHHHHcCCCHHHHhcCccHHHHHHHHHHHHHHCCEeCCCccccccccccccccccccccccccccccccccccccccccc
Confidence 46888999999999999999999999999999999999986321000 0 000 000000
Q ss_pred --------cCCCCCcccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCC------Cccccccc--
Q psy1361 618 --------GKGRKKAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQD------SDITTLCE-- 681 (1274)
Q Consensus 618 --------~~~~kk~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~------~~~~~ip~-- 681 (1274)
...+++.+|+||+||+|++|||++||++|||+|||||||++|||||+|++...... ++...++.
T Consensus 638 ~~~~~~~~~~~~~~~~Y~Gg~VleP~~Gly~~pV~vLDF~SLYPSII~a~Nlc~sTl~~~~~~~~~l~~~~dy~~~~~~~ 717 (1193)
T 2gv9_A 638 EREPEGARETAGRHVGYQGAKVLDPTSGFHVNPVVVFDFASLYPSIIQAHNLCFSTLSLRADAVAHLEAGKDYLEIEVGG 717 (1193)
T ss_dssp ---------------------CCCCCCEEECSCEEEEEEETHHHHHHHHTTCCTTTEESCSTTSTTCCTTTTEEEEECSS
T ss_pred ccccchhhhccccccccCCCEEeecCCCeeeCcEEEEeccccchHHHHHhcCCcceeccCchhhccCCCccceeEecCCC
Confidence 01234568999999999999999999999999999999999999999998753211 11111221
Q ss_pred ---cCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHH
Q psy1361 682 ---YLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALV 758 (1274)
Q Consensus 682 ---~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~I 758 (1274)
.+.....++||||++|+.|+++|+++|++||.. ++.++.+||.+|+|||++|||+|||+|++++||||.++|++|
T Consensus 718 ~~~~fvk~~~~~gilp~lL~~ll~~Rk~~K~~mk~~--~~~~~~llD~~QlAlKi~aNS~YG~~G~~~grlpc~~iA~sV 795 (1193)
T 2gv9_A 718 RRLFFVKAHVRESLLSILLRDWLAMRKQIRSRIPQS--SPEEAVLLDKQQAAIKVVCNSVYGFTGVQHGLLPCLHVAATV 795 (1193)
T ss_dssp SEEEEECTTTSCCHHHHHHHHHHHHHHHHHHHGGGS--CHHHHHHHHHHHHHHHHHHHHHHHHHHCTTSSSCCHHHHHHH
T ss_pred CceeeccCccccchHHHHHHHHHHHHHHHHHhcccC--CHHHHHHHHHHHHHHHHhhcceecccccccccccCHHHHHHH
Confidence 133345689999999999999999999999974 788999999999999999999999999999999999999999
Q ss_pred HHHhHHHHHHHHHHHHh-----------------------cCccceeccccceeeecCCCCHHHHHHHHHHHHHHHhhc-
Q psy1361 759 TAKGREILLNTKSLVEN-----------------------LNYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSECNKL- 814 (1274)
Q Consensus 759 T~~GReiL~~tke~ve~-----------------------~g~~VIYGDTDSImI~~~~~d~eea~kig~eI~~~VN~~- 814 (1274)
|+.||+||++|++++|+ +|++|||||||||||++++.+.++++++|++|+++||+.
T Consensus 796 T~~GR~~L~~tk~~IE~~~~~~~~l~~~f~~~~~~~~~~~~g~~VIYGDTDSvfV~~~~~~~~~~~~~g~~i~~~i~~~~ 875 (1193)
T 2gv9_A 796 TTIGREMLLATREYVHARWAAFEQLLADFPEAADMRAPGPYSMRIIYGDTDSIFVLCRGLTAAGLTAMGDKMASHISRAL 875 (1193)
T ss_dssp HHHHHHHHHHHHHHHHHHHSSHHHHHHHCGGGGGGBCSSCCEEEEEEECSSEEEEEEETBCSTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhhcchhhhhhhcccccccccccccccceeeccCCceEEecCCCCHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999984 388999999999999998888899999999999999974
Q ss_pred C-ccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchH
Q psy1361 815 Y-KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLD 893 (1274)
Q Consensus 815 ~-~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e 893 (1274)
+ .+|+||+|++|++|||++||||||+.+ +|+ +++||+|+||||||+|+|++++++|+.||.+++ .+
T Consensus 876 ~~~~i~LE~Ekvy~~~ll~~KKRYag~~~----~g~----l~~KG~e~vRRD~~~lvk~~~~~vl~~ll~~~d-----~~ 942 (1193)
T 2gv9_A 876 FLPPIKLECEKTFTKLLLIAKKKYIGVIY----GGK----MLIKGVDLVRKNNCAFINRTSRALVDLLFYDDT-----VS 942 (1193)
T ss_dssp CCTTCEEEEEEEEEEEEEEETTEEEEEET----TSC----EEEESCCSCCTTSCHHHHHHHHHHHHHHHHCHH-----HH
T ss_pred cCCCEEEEeceeeHHHhhhccceEEEEec----CCE----eEEECCeeecCchHHHHHHHHHHHHHHHHcCCC-----HH
Confidence 4 479999999999999999999999963 454 589999999999999999999999999999988 66
Q ss_pred HHH--------------------HHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhCC
Q psy1361 894 DRL--------------------QNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNS 953 (1274)
Q Consensus 894 ~~v--------------------e~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G 953 (1274)
+++ ..|++++.+.+.+|++|++++++|+|+|+|+|+|++|.++ .+|||+||+||..+.|
T Consensus 943 ~a~~~v~~~~~~e~~~~~~~~~~~~i~~~l~~~~~~l~~~~v~i~~lvitk~LsK~~~~Y~~~-~~phv~vA~rl~~~~~ 1021 (1193)
T 2gv9_A 943 GAAAALAERPAEEWLARPLPEGLQAFGAVLVDAHRRITDPERDIQDFVLTAELSRHPRAYTNK-RLAHLTVYYKLMARRA 1021 (1193)
T ss_dssp HHHHHGGGSCHHHHHHSCCCGGGHHHHHHHHHHHHHHHSSCSCCGGGCBCC-----------------------------
T ss_pred HHHHHHhhcchhhhhhccchhHHHHHHHHHHHHHHHHHcCCCCHHHHHHHhhcCCChhHhccc-CCcHHHHHHHHHHhcC
Confidence 554 3467789999999999999999999999999999999874 5799999999976667
Q ss_pred CCCCCCCEEEEEEEeCCCC--------------------C----------------------------------cccccc
Q psy1361 954 KKLKQGDTISYIICEDGTS--------------------E----------------------------------AATQRA 979 (1274)
Q Consensus 954 ~~v~~Gd~I~YVI~~~g~~--------------------~----------------------------------~~~~RA 979 (1274)
..++.||+|+|||+.++.+ . ...++|
T Consensus 1022 ~~p~~GdrI~YVI~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a 1101 (1193)
T 2gv9_A 1022 QVPSIKDRIPYVIVAQTREVEETVARLAALRELDAAAPGDEPAPPAALPSPAKRPRETPSHADPPGGASKPRKLLVSELA 1101 (1193)
T ss_dssp ---CCTTTSCBEEBCC--------------------------------------------------------CCCSSCCE
T ss_pred CCCCCCCEEEEEEEECCCCccccccchhhhhcccccccCCcccccccccccccccccccccccccccccccccchhhhhc
Confidence 7789999999999976431 0 126789
Q ss_pred cChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCCh
Q psy1361 980 YNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDA 1019 (1274)
Q Consensus 980 ~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~ 1019 (1274)
.+|..+.. ++++||++|||++ ++.|+.|+|+||.|.+.
T Consensus 1102 edp~yv~~-~~~~i~~~yY~~~-~~~~~~~~~~~~~~~~~ 1139 (1193)
T 2gv9_A 1102 EDPAYAIA-HGVALNTDYYFSH-LLGAACVTFKALFGNNA 1139 (1193)
T ss_dssp ECHHHHHH-TTCCBCHHHHHHH-HHHHHHHHSGGGGTTCH
T ss_pred cCcHHHhh-cCCcccHHHHHHH-hhhHHHHHHHHhcCcch
Confidence 99998864 7899999999998 66789999999988764
No 3
>1qht_A Protein (DNA polymerase); archaea, hyperthermostable, family B polymer alpha family polymerase, transferase; 2.10A {Thermococcus SP} SCOP: c.55.3.5 e.8.1.1 PDB: 1tgo_A 2xhb_A* 2vwj_A* 2vwk_A* 1wns_A* 1wn7_A 1qqc_A* 4ahc_A* 4ail_C* 3a2f_A* 2jgu_A* 1d5a_A
Probab=100.00 E-value=1.3e-84 Score=814.42 Aligned_cols=422 Identities=30% Similarity=0.486 Sum_probs=336.8
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
++|++|+|+++..++..|++.++|++|||+++++|||+|++..... ..+++.+|+||+|++|++|+|
T Consensus 331 ~~la~i~g~~~~~v~r~~~~~~ve~~Ll~~~~~~~~i~P~~~~~~~-------------~~~~~~~y~Gg~V~eP~~G~y 397 (775)
T 1qht_A 331 AQLSRLIGQSLWDVSRSSTGNLVEWFLLRKAYKRNELAPNKPDERE-------------LARRRGGYAGGYVKEPERGLW 397 (775)
T ss_dssp HHHHHHHTSCHHHHTTCCHHHHHHHHHHHHHHHTTBCCCCCCCHHH-------------HHHTTTCCCCCCBCCCCCSCE
T ss_pred HHHHHHhCCCchhceecccHHHHHHHHhHHHHhCCEeCCCCCchhh-------------hhccccccCCceEecccCCcc
Confidence 6899999999999998999999999999999999999998753210 001257899999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCCccccccc-cCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCCh
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCE-YLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLSS 718 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~-~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~~ 718 (1274)
++ |++|||+|||||||++|||||+|+++..+.+ ....|. +..+...+.|++|++|++|+++|+++|+.|++ ..++
T Consensus 398 ~~-v~~lDF~SLYPSIi~~~nl~~~t~~~~~~~~--~~~~~~~~~~f~~~~~g~lp~~l~~l~~~R~~~K~~~k~-~~~~ 473 (775)
T 1qht_A 398 DN-IVYLDFRSLYPSIIITHNVSPDTLNREGCKE--YDVAPEVGHKFCKDFPGFIPSLLGDLLEERQKIKRKMKA-TVDP 473 (775)
T ss_dssp EE-EEEEECSSHHHHHHHHTTCSTTTBTCTTCSC--EEECTTTCCEEECSSCCHHHHHHHHHHHHHHHHHHHHHT-CCCH
T ss_pred cc-eeecchhcccHHHHHhcCCCccccccccccc--cccCCccCcccccccCCCchHHHHHHHHHHHHHHHHhhc-CCCH
Confidence 98 9999999999999999999999998765521 111221 01123468999999999999999999999998 6789
Q ss_pred HHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHH-HhcCccceeccccceeeecCCCCH
Q psy1361 719 DLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLV-ENLNYEVIYGDTDSLMISCNVNDY 797 (1274)
Q Consensus 719 ~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~v-e~~g~~VIYGDTDSImI~~~~~d~ 797 (1274)
.++.+||.+|+|+|++|||+|||+|++++||||.++|++||+.||++|++|++.+ +++|++|||||||||||.+++.+.
T Consensus 474 ~~~~~~d~~Q~A~Ki~~NS~YG~~g~~~~r~~~~~~A~~vT~~Gr~~i~~~~~~i~~~~g~~ViygDTDSi~v~~~~~~~ 553 (775)
T 1qht_A 474 LEKKLLDYRQRAIKILANSFYGYYGYAKARWYCKECAESVTAWGREYIEMVIRELEEKFGFKVLYADTDGLHATIPGADA 553 (775)
T ss_dssp HHHHHHHHHHHHHHHHHTTHHHHHHCTTCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEETTEEEEECTTCCH
T ss_pred HHHHHHHHHHHhhheeeccccccccccccCcCCHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEeeccceEEEcCCCCH
Confidence 9999999999999999999999999999999999999999999999999999875 567999999999999999999899
Q ss_pred HHHHHHHHHHHHHHhhcC-ccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHH
Q psy1361 798 DSVFKIGNQIKSECNKLY-KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKF 876 (1274)
Q Consensus 798 eea~kig~eI~~~VN~~~-~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~ 876 (1274)
++++++|+++++.||+.+ .+++||+|++|++++|++|||||++. .+|+ +++||+|+||||||+|+|+++++
T Consensus 554 ~~~~~~~~~~~~~i~~~~~~~~~le~e~~y~~~~l~~KKrYa~~~----~~g~----l~~KG~e~vRrd~~~l~k~~~~~ 625 (775)
T 1qht_A 554 ETVKKKAKEFLKYINPKLPGLLELEYEGFYVRGFFVTKKKYAVID----EEGK----ITTRGLEIVRRDWSEIAKETQAR 625 (775)
T ss_dssp HHHHHHHHHHHHHHC------CCCEEEEEEEEEEEEETTEEEEEC----TTCC----CEEESCSCCCSCCCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhcCCCCeEEEEeEEeeeheecccCeEEEEc----cCCe----EEEEeeEEEeCCcHHHHHHHHHH
Confidence 999999999999999987 58999999999999999999999872 4665 47999999999999999999999
Q ss_pred HHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhCCCCC
Q psy1361 877 VISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNSKKL 956 (1274)
Q Consensus 877 vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G~~v 956 (1274)
+|+.||.+++ .+ .+.+++.++..+|++|++|+++|+|+|+|+|++++|++ .+|||++|+||++ .|..+
T Consensus 626 vl~~ll~~~d-----~~----~~~~~v~~~~~~l~~~~~~~~~lvi~k~lsk~~~~Y~~--~~phv~~A~rl~~-~g~~~ 693 (775)
T 1qht_A 626 VLEAILKHGD-----VE----EAVRIVKEVTEKLSKYEVPPEKLVIHEQITRDLRDYKA--TGPHVAVAKRLAA-RGVKI 693 (775)
T ss_dssp HHHHHHHHCC-----HH----HHHHHHHHTC------------CCBCCBC--------C--CHHHHHHHHHHHT-TTCCC
T ss_pred HHHHHhcCCC-----HH----HHHHHHHHHHHHHHcCCCCHHHhhhhHHhcCCHHHcCC--CChHHHHHHHHHh-cCCCC
Confidence 9999999998 54 45566777888899999999999999999999999985 5899999999975 58889
Q ss_pred CCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCChhHH
Q psy1361 957 KQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAVRI 1022 (1274)
Q Consensus 957 ~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~i 1022 (1274)
.+||+|+|||++++ .++.+||++|+++.. .++.||++|||++||+||+.|||++| |++...|
T Consensus 694 ~~GdrI~YVi~~g~--~~~~~ra~~~~~~~~-~~~~iD~~yYi~~qi~ppl~ri~~~~-g~~~~~l 755 (775)
T 1qht_A 694 RPGTVISYIVLKGS--GRIGDRAIPADEFDP-TKHRYDAEYYIENQVLPAVERILKAF-GYRKEDL 755 (775)
T ss_dssp CTTCBCCEEECCC-------CSEEETTCC----------CHHHHTTHHHHSHHHHHTT-TC-----
T ss_pred CCCCEEEEEEEeCC--CChhhcccCHHHhcc-CCCCCCHHHHHHhcCHHHHHHHHHHh-CCCHHHh
Confidence 99999999999653 267899999999863 46899999999999999999999987 7775554
No 4
>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 3maq_A* 1q8i_A*
Probab=100.00 E-value=8.9e-80 Score=767.33 Aligned_cols=398 Identities=27% Similarity=0.431 Sum_probs=344.7
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.++++++|++|+++ ||+..++|+||||++|++|||+|++... ...+|+||+|++|++|+|
T Consensus 356 ~elarl~Gi~~~~~--ggs~~~~~~lll~~~~~~~~i~P~~~~~------------------~~~~y~Gg~V~eP~~G~y 415 (786)
T 3k59_A 356 LERATVNGLPVDRH--GGSVAAFGHLYFPRMHRAGYVAPNLGEV------------------PPHASPGGYVMDSRPGLY 415 (786)
T ss_dssp HHHHHHHCSCTTCC--CCHHHHHHHHHHHHHHHTTBCCCCTTSS------------------CCCCCCCCCBCCCCCEEE
T ss_pred HHHHHHhCCCHHHc--ccHHHHHHHHHHHHHHHcCeeCCCcccc------------------ccccCCCcEEeeccCCce
Confidence 78999999999995 8888999999999999999999987531 135799999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCCccccccc--cCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCC
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCE--YLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLS 717 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~--~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~ 717 (1274)
++ |++|||+|||||||++|||||+|++...+..++.+.+|. +..+ ..++||||++|+.|++.|+++|+.|++
T Consensus 416 ~~-V~~lDF~SLYPSIi~~~ni~~~t~~~~~~~~~~~~~~~~~~g~~f-~~~~g~lp~~l~~l~~~R~~~K~~~~~---- 489 (786)
T 3k59_A 416 DS-VLVLDYKSLYPSIIRTFLIDPVGLVEGMAQPDPEHSTEGFLDAWF-SREKHCLPEIVTNIWHGRDEAKRQGNK---- 489 (786)
T ss_dssp SC-EEEEEETTHHHHHHHHHCCCHHHHHHHHHSCSTTTEEECSTTCEE-ESSCCSHHHHHHHHHHHHHHHHHTTCH----
T ss_pred ee-EEEEEhhhccHHHHHHhCCCccccccccCCccccccccCCCCceE-eecCCchHHHHHHHHHHHHHHHHhcch----
Confidence 98 999999999999999999999998754322122233432 1112 238999999999999999999998752
Q ss_pred hHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCC-CC
Q psy1361 718 SDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNV-ND 796 (1274)
Q Consensus 718 ~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~-~d 796 (1274)
.+|+|+|++|||+|||+|++++||||+++|++||+.||++|+.|++++|++|++|||||||||||+++. .+
T Consensus 490 --------~~q~AlKi~~Ns~YG~~G~~~~~~~~~~~A~~iT~~GR~~l~~~~~~ie~~g~~ViYGDTDSvfv~~~~~~~ 561 (786)
T 3k59_A 490 --------PLSQALKIIMNAFYGVLGTTACRFFDPRLASSITMRGHQIMRQTKALIEAQGYDVIYGDTDSTFVWLKGAHS 561 (786)
T ss_dssp --------HHHHHHHHHHHHHHHGGGSTTSTTCCHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEECBSSEEEEECCSCCC
T ss_pred --------HHHHhhheeeecccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCEEEEEeccceEEEcCCCCC
Confidence 479999999999999999999999999999999999999999999999999999999999999999987 68
Q ss_pred HHHHHHHHHHHHHHHhhcC----------ccEEEEeeehhhHhhcc--------ccccceEEEeeecCCCceeeeeeeec
Q psy1361 797 YDSVFKIGNQIKSECNKLY----------KQLELDIDGVYKYMLLL--------KKKKYAALSISKLSNGKMICSQEIKG 858 (1274)
Q Consensus 797 ~eea~kig~eI~~~VN~~~----------~~LeLe~E~vy~~lLLl--------~KKrYA~l~~~~~~dG~~~~~~evKG 858 (1274)
.++++++|++++++||+.| .+|+||+|++|.++||+ +||||||+.++. +| .++++||
T Consensus 562 ~~~~~~~g~~l~~~vn~~~~~~~~~~~l~~~i~Le~Ekvy~~~ll~t~rg~~~~~KKRYag~~~~~--~~---~~~~~KG 636 (786)
T 3k59_A 562 EEEAAKIGRALVQHVNAWWAETLQKQRLTSALELEYETHFCRFLMPTIRGADTGSKKRYAGLIQEG--DK---QRMVFKG 636 (786)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCEEEEEEESEEEECBCTTSSSBCSSCEEEEEEET--TE---EEEEEES
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhcCCCceEEEEEEeEhhheehhccCCcccccceEEEEEecC--CC---CEEEEEe
Confidence 9999999999999999865 27999999999999986 599999998763 33 3578999
Q ss_pred ceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCC
Q psy1361 859 VDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKA 938 (1274)
Q Consensus 859 le~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~ 938 (1274)
+|+||||||+|+|++++++|+.||.+++ + +++++++..+|++|+++ ++|+|+|+|+|++++|+. +.
T Consensus 637 le~vRrD~~~l~k~~~~~~l~~il~~~~-----v-------~~~~~~~~~~l~~g~~~-~~lv~~k~l~k~~~~Y~~-~~ 702 (786)
T 3k59_A 637 LETVRTDWTPLAQQFQQELYLRIFRNEP-----Y-------QEYVRETIDKLMAGELD-ARLVYRKRLRRPLSEYQR-NV 702 (786)
T ss_dssp SGGGCTTSCHHHHHHHHHHHHHHHTTCC-----C-------HHHHHHHHHHHHTTCCG-GGCCEEEEECSCGGGCCS-CC
T ss_pred eEEEcCCccHHHHHHHHHHHHHHHcCCC-----H-------HHHHHHHHHHHHcCCCC-hheEEEeeecCChHHccc-CC
Confidence 9999999999999999999999999887 3 46778889999999999 899999999999999985 56
Q ss_pred chHHHHHHHHhh---hCCC--CCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccc
Q psy1361 939 LPHVQVALRLNN---TNSK--KLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEP 1013 (1274)
Q Consensus 939 ~PHV~vAlrl~~---~~G~--~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~p 1013 (1274)
+|||++|++|.+ +.|. .+++||+|+|||+.+|+. |.++ ..++||++|||++||+|+++||+.+
T Consensus 703 ~phv~aa~~~~~~~~~~g~~~~~~~G~rI~YVi~~~g~~---------p~~~---~~~~iD~~yYi~~ql~p~~~~il~~ 770 (786)
T 3k59_A 703 PPHVRAARLADEENQKRGRPLQYQNRGTIKYVWTTNGPE---------PLDY---QRSPLDYEHYLTRQLQPVAEGILPF 770 (786)
T ss_dssp CHHHHHHHHHHHHHHHTTCCCCSTTSEEEEEEEETTEEE---------EGGG---CCSCBCHHHHHHHTHHHHHHTTGGG
T ss_pred cHHHHHHHHHHHhhhccCCCcCCCCCCEEEEEEeCCCCC---------Chhh---ccCCCcHHHHHHHhhHHHHHHHHHh
Confidence 799999998753 3465 799999999999975431 2223 2368999999999999999999987
Q ss_pred cCCCChhHHH
Q psy1361 1014 IEGTDAVRIA 1023 (1274)
Q Consensus 1014 i~G~d~~~ia 1023 (1274)
+ |.|.+.|.
T Consensus 771 ~-g~~~~~l~ 779 (786)
T 3k59_A 771 I-EDNFATLM 779 (786)
T ss_dssp G-TCCHHHHH
T ss_pred h-CCCHHHHc
Confidence 7 88866653
No 5
>3qex_A DNA polymerase, GP43; difluorotoluene nucleoside; HET: DNA DOC DGT; 1.73A {Enterobacteria phage RB69} PDB: 3qei_A* 3qer_A* 3qes_A* 3qet_A* 3qep_A* 3qew_A* 3qev_A* 3s9h_A* 3sq0_A* 4dtn_A* 4dto_A* 4dtp_A* 4dtr_A* 4dts_A* 4dtu_A* 4dtx_A* 4e3s_A* 4fjm_A* 4fjl_A* 3spz_A* ...
Probab=100.00 E-value=5.7e-75 Score=727.83 Aligned_cols=428 Identities=19% Similarity=0.218 Sum_probs=345.9
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
+++++|+|++|.++++ +...+|+||+|+++++||++|++.. ....+|.||+|++|++|+|
T Consensus 345 ~elArl~Gi~~~~vls--q~~v~e~LLlr~a~~~~~iiP~~~~------------------~~~~~y~Gg~V~~p~~G~y 404 (903)
T 3qex_A 345 LDMGYYAKIQIQSVFS--PIKTWDAIIFNSLKEQNKVIPQGRS------------------HPVQPYPGAFVKEPIPNRY 404 (903)
T ss_dssp HHHHHHHTSCGGGGGC--HHHHHHHHHHHHHHTTTEECCCCCC------------------CCCCCCCCCCBCCCCCEEC
T ss_pred HHHHHHhCCCHHHhcc--hHHHHHHHHHHHHHHCCEeccCCcc------------------cccCCCCCCEEecccCCce
Confidence 7899999999999994 4555699999999999999998752 1246799999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCC------------ccc--cccccCCcccccCCCcHHHHHHHHHHHH
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDS------------DIT--TLCEYLPEHQVDTGILPSEIKKLVESRR 705 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~------------~~~--~ip~~~~~~~~~~GILP~iL~~Lle~R~ 705 (1274)
++ |++|||+|||||||++|||||+|+++..+... +++ ..|++..+.+.++||||++|++|++.|+
T Consensus 405 ~~-v~~lDf~SLYPsIi~~~ni~~~T~~~~~~~~~~~~~i~~~~~~p~~~~~~~p~g~~F~k~~~GiLP~iL~~Ll~~R~ 483 (903)
T 3qex_A 405 KY-VMSFDLTSLYPSIIRQVNISPETIAGTFKVAPLHDYINAVAERPSDVYSCSPNGMMYYKDRDGVVPTEITKVFNQRK 483 (903)
T ss_dssp SS-EEEEEETTHHHHHHHHHTCCGGGEEEECCCCCHHHHHTTCSCCSCSSSEECTTSEEECCSSCCHHHHHHHHHHHHHH
T ss_pred EE-EEEEehhhhchHHHHHhCcChhhccccccccchhcccccccCCCCCceeeCCCCceEecCCCcchHHHHHHHHHHHH
Confidence 86 99999999999999999999999987654210 000 1122222234689999999999999999
Q ss_pred HHHHHhcCCC-----------------CCh---------------------------------HHHHHHHHHHHHhhccc
Q psy1361 706 QVKALMKQPN-----------------LSS---------------------------------DLLMQYDIRQKALKLTA 735 (1274)
Q Consensus 706 ~vK~~mK~~~-----------------~~~---------------------------------~~~~~ld~rQ~ALKl~a 735 (1274)
++|+.|++.+ .+| .++++||.+|+|+||+|
T Consensus 484 ~~K~~mk~~~~~~~~~k~~L~~~~~~~~dp~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~d~rQ~AlKi~~ 563 (903)
T 3qex_A 484 EHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRFDFSDEIKEKIKKLSAKSLNEMLFRAQRTEVAGMTAQINRKALI 563 (903)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSCCSSCCCCCCCCTTSCCCHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhhccccchhhhhhcccccccccCccccccccccchhhhhhhhccchhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 9999997531 123 35678999999999999
Q ss_pred cccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhc--------C-ccceeccccceeeecCCCC-H--HHHHHH
Q psy1361 736 NSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENL--------N-YEVIYGDTDSLMISCNVND-Y--DSVFKI 803 (1274)
Q Consensus 736 NS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~--------g-~~VIYGDTDSImI~~~~~d-~--eea~ki 803 (1274)
||+|||||++++||||.++|++||+.||++|++|++.++++ | ++|||||||||||+++... . ++++++
T Consensus 564 NS~YG~~G~~~~r~~~~~~A~sIT~~GR~~i~~~~~~v~~~~~~~~~~~~~~~VIYGDTDSvfV~~~~~~~~~~~~~f~~ 643 (903)
T 3qex_A 564 NGLAGALGNVWFRYYDLRNATAITTFGQMALQWIERKVNEYLNEVCGTEGEAFVLYGDTDSIYVSADKIIDKVGESKFRD 643 (903)
T ss_dssp HHHHHHTTSTTSTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCEEEEETTEEEEECHHHHHHHCGGGCSS
T ss_pred HHHHHhhcCcccccCCHHHHHHHHHHhhHHHHHHHHHHHHHHHhhcCCCCCeEEEEEeCCceEEEeCCccchhhhhhhhH
Confidence 99999999999999999999999999999999999998863 5 5999999999999987532 1 122344
Q ss_pred HHHHHHHHhh----------------------cC-ccEEEEeeehhhH--------hhccccccceEEEeeecCCCce--
Q psy1361 804 GNQIKSECNK----------------------LY-KQLELDIDGVYKY--------MLLLKKKKYAALSISKLSNGKM-- 850 (1274)
Q Consensus 804 g~eI~~~VN~----------------------~~-~~LeLe~E~vy~~--------lLLl~KKrYA~l~~~~~~dG~~-- 850 (1274)
|+++.+.||+ .| .++.|++|+||.+ ++|++||||||+.++.+ |+.
T Consensus 644 g~~l~~~i~~~~~~~~~~~i~~~~~el~e~~~~~~~p~~l~~E~i~~~~~gs~~~~~~l~~KKRYag~~~~~~--g~~~~ 721 (903)
T 3qex_A 644 TNHWVDFLDKFARERMEPAIDRGFREMCEYMNNKQHLMFMDREAIAGPPLGSKGIGGFWTGKKRYALNVWDME--GTRYA 721 (903)
T ss_dssp HHHHHHHHHHHHHHTHHHHHHHHHHHHHHHTTCSSCCCCEEEEEEECCCTTSCCCCEEEEETTEEEEEEEEET--TEEEE
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhccCCcceeeeeeeeecCcccccccchheeeccceEEEEeecC--CcccC
Confidence 4444333322 23 4799999999999 99999999999998764 432
Q ss_pred eeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCc
Q psy1361 851 ICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAP 930 (1274)
Q Consensus 851 ~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~p 930 (1274)
.+++++||+|+||||||++++++++++|+.||.+.+ +.++++++++.+++++ +++++|+|++++ +++
T Consensus 722 ~~kl~~kGlE~vRrd~~~~~k~~~~~~l~~ll~~~~----------~~~~~yv~~~~~~~~~--~~~~di~~~~~~-~~l 788 (903)
T 3qex_A 722 EPKLKIMGLETQKSSTPKAVQKALKECIRRMLQEGE----------ESLQEYFKEFEKEFRQ--LNYISIASVSSA-NNI 788 (903)
T ss_dssp EEEEEEESSGGGCTTSCHHHHHHHHHHHHHHHHTCH----------HHHHHHHHHHHHHGGG--SCGGGGCEEEEC-CCT
T ss_pred CCeeEEeceEEEeccchHHHHHHHHHHHHHHHhcCc----------HHHHHHHHHHHHHHHc--CCHHHEEeeccc-CCH
Confidence 457899999999999999999999999999998654 5688899999999998 678999999999 689
Q ss_pred cccCCC-----CCchHHHHHHHHhhhCCC-----CCCCCCEEEEEEEeCCCCCcccccc-------cChHHHhhCCCccc
Q psy1361 931 EEYTDR-----KALPHVQVALRLNNTNSK-----KLKQGDTISYIICEDGTSEAATQRA-------YNIEELKNNSKLKI 993 (1274)
Q Consensus 931 e~Y~d~-----~~~PHV~vAlrl~~~~G~-----~v~~Gd~I~YVI~~~g~~~~~~~RA-------~~p~e~~~~~~l~i 993 (1274)
+.|.+. ++++||..|+..++..+. .++.|++|+||+.+++. +..+|. ..|+|+..+..+.+
T Consensus 789 ~~Y~~~~~~~~~~p~hv~ga~~~n~~~~~~~~~~~~~~Gekv~~v~lk~~~--~~~~~~i~~~~~~~~p~e~~~~~~~~i 866 (903)
T 3qex_A 789 AKYDVGGFPGPKCPFHIRGILTYNRAIKGNIDAPQVVEGEKVYVLPLREGN--PFGDKCIAWPSGTEITDLIKDDVLHWM 866 (903)
T ss_dssp GGGEETTEECTTCCHHHHHHHHHHHHTTTCSSSCCCCTTSEEEEEEBCTTC--TTSSSEEEEETTSCCCHHHHHHHHHHB
T ss_pred HHhCCCCCCCCCCchhHHHHHHHHHHhhcccCCCCCCCCCcceEEEEeCCC--CCCCceEeccccccCcHHHhhCccccc
Confidence 999874 467899988765543222 67899999999998644 234442 34778864455679
Q ss_pred cHHHHHhccchHHHHHhccccCCCChhHHHHHh
Q psy1361 994 DVNYYLSQQIHPVVTRLLEPIEGTDAVRIAECL 1026 (1274)
Q Consensus 994 D~eYYl~kQI~Ppv~Rl~~pi~G~d~~~ia~~L 1026 (1274)
|++|||++||+|||+|||++| |++.+..|.++
T Consensus 867 D~~~~~~k~~~~pl~ri~~~~-g~~~e~~~~~~ 898 (903)
T 3qex_A 867 DYTVLLEKTFIKPLEGFTSAA-KLDYEKKASLF 898 (903)
T ss_dssp CHHHHHHHHTHHHHHHHHHHH-TCCSSCCCCGG
T ss_pred CHHHHHHHhchhHHHHHHHHc-CCCHHHhccHH
Confidence 999999999999999999988 88877766555
No 6
>1s5j_A DNA polymerase I; replication, disulfide bonds, transferase; HET: DNA; 2.40A {Sulfolobus solfataricus} SCOP: c.55.3.5 e.8.1.1
Probab=100.00 E-value=3.1e-75 Score=734.72 Aligned_cols=426 Identities=24% Similarity=0.336 Sum_probs=276.9
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.++++++|.++..++.+|.+.++|++|+|+++++|||+|++....+. .+. .......+..+|.||+|++|++|+|
T Consensus 398 ~~la~i~~lp~~~l~r~~~~~~v~slll~~~~~~~~i~P~~~~~~~~-~~~----~~~~~~~~~~~y~Gg~V~eP~~G~y 472 (847)
T 1s5j_A 398 VLFSRISRLGIEELTRTEISTWVKNLYYWEHRKRNWLIPLKEEILAK-SSN----IRTSALIKGKGYKGAVVIDPPAGIF 472 (847)
T ss_dssp HHHHHHHCCCHHHHTTSCHHHHHHHHHHHHHHHHTBCCCCHHHHHHT-TCC------------------CCCCCCCSEEE
T ss_pred HHHHHHhCCCchhhcccchhhhhHHHHHHHHHhcCcccCCchhhhhh-ccc----ccchhccccccccCCcccCCCCCcc
Confidence 57899999999988878888899999999999999999998532100 000 0000112346899999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCC--ccccccccCC--cccccCCCcHHHHHHHHHHHHHHHHHhcC-C
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDS--DITTLCEYLP--EHQVDTGILPSEIKKLVESRRQVKALMKQ-P 714 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~--~~~~ip~~~~--~~~~~~GILP~iL~~Lle~R~~vK~~mK~-~ 714 (1274)
++ |++|||+|||||||++|||||+|+++..+... ..+.+|. .. ....+.||+|.+|+.|++.|+++|+.|++ .
T Consensus 473 ~~-v~~lDf~SLYPSIi~~~Nl~~~T~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~p~~l~~l~~~R~~~kk~~~k~~ 550 (847)
T 1s5j_A 473 FN-ITVLDFASLYPSIIRTWNLSYETVDIQQCKKPYEVKDETGE-VLHIVCMDRPGITAVITGLLRDFRVKIYKKKAKNP 550 (847)
T ss_dssp EE-EEEEEETTHHHHHHHHTTCCTTTBSCSCCSSCCEECCSSSC-CCEEBCCSSCCHHHHHHHHHHHHHHHTHHHHHTCT
T ss_pred cc-eeEeehhhhchHHHHHcCCCcceeccccccccccccccCCC-CceeEeccCCcccHHHHHHHHHHHHHHHHHHHhcc
Confidence 98 99999999999999999999999986543211 1123343 11 12468999999999999999998777644 3
Q ss_pred CCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCC
Q psy1361 715 NLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNV 794 (1274)
Q Consensus 715 ~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~ 794 (1274)
..++.++.+||.+|+|||++|||+|||+|++++||||.++|++||+.||++|++|++++|++|++|||||||||||.++.
T Consensus 551 ~~~~~~~~~~d~~Q~AlKi~~NS~YG~~g~~~~~~~~~~~A~~iT~~GR~~l~~t~~~ve~~g~~ViYGDTDSi~v~~~~ 630 (847)
T 1s5j_A 551 NNSEEQKLLYDVVQRAMKVFINATYGVFGAETFPLYAPRVAESVTALGRYVITSTVKKAREEGLTVLYGDTDSLFLLNPP 630 (847)
T ss_dssp TSCHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSTTCCHHHHHHHHHHHHHHHHHHHHHHHTTTCCEEEEETTEEEEESCC
T ss_pred CCCHHHHHHHHHHHHHHHHHhhccccccccccccccCHHHHHHHHHHHHHHHHHHHHHHHhCCcEEecCCCcceEEecCc
Confidence 45888999999999999999999999999999999999999999999999999999999999999999999999999764
Q ss_pred CCHHHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhcc-ccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHH
Q psy1361 795 NDYDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLL-KKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEA 873 (1274)
Q Consensus 795 ~d~eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl-~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~ 873 (1274)
.+.+. ++.+.|++.+ +++||+|++|++++|. +||||||+. .+|+ +++||+++||||||+|+|++
T Consensus 631 --~~~~~----~~~~~v~~~~-~i~le~e~vy~~~ll~~~KKrYag~~----~~g~----~~~KG~e~vRrd~~~l~k~~ 695 (847)
T 1s5j_A 631 --KNSLE----NIIKWVKTTF-NLDLEVDKTYKFVAFSGLKKNYFGVY----QDGK----VDIKGMLVKKRNTPEFVKKV 695 (847)
T ss_dssp --HHHHH----HHHHHHHHHS-SCCEEEEEEEEEEEEC----CEEEEC----SSSC----CCEESCCC--------CCSH
T ss_pred --HHHHH----HHHHHHHhhc-CccEEecchhHhHccchhhCcEEEEe----cCCe----eeeeeeEEeeCCcHHHHHHH
Confidence 33443 4555666666 5999999999998887 899999984 3564 58999999999999999999
Q ss_pred HHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhCC
Q psy1361 874 GKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNS 953 (1274)
Q Consensus 874 ~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G 953 (1274)
++++|+.||.+.+.++ .+.+++.+++++.+..++|++|++|+++|+|+++|+|++++|.+. .+|||++|++|++ .|
T Consensus 696 ~~~~l~~ll~~~~~~~--~~~~~~~i~~~~~~~~~~l~~~~~~~~~l~~~k~l~k~~~~Y~~~-~~~hv~~A~~~~~-~g 771 (847)
T 1s5j_A 696 FNEVKELMISINSPND--VKEIKRKIVDVVKGSYEKLKNKGYNLDELAFKVMLSKPLDAYKKN-TPQHVKAALQLRP-FG 771 (847)
T ss_dssp HHHHHHHHHTTCCSCC--TTHHHHHHHHHHHHHHCTTC------------------------------------------
T ss_pred HHHHHHHHHhcCChhh--HHHHHHHHHHHHHHHHHHHHcCCCCHHHEEEEEEeccChhHhccC-CCHHHHHHHHHHh-cC
Confidence 9999999998766333 566888999999999999999999999999999999999999864 4699999999975 78
Q ss_pred CCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCChhHH
Q psy1361 954 KKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAVRI 1022 (1274)
Q Consensus 954 ~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~i 1022 (1274)
..+++||+|+|||+.++.+..+.+++ ....||++|||++ |.|+++||+++| |++-..|
T Consensus 772 ~~~~~GdrI~Yvi~~~~~g~~~~~~~---------~~~~iD~~~Yl~~-l~~~~~~il~~~-g~~~~~i 829 (847)
T 1s5j_A 772 VNVLPRDIIYYVKVRSKDGVKPVQLA---------KVTEIDAEKYLEA-LRSTFEQILRAF-GVSWDEI 829 (847)
T ss_dssp ---------------------------------------CCSSTTHHH-HHTTSTTHHHHH-SCCCCCC
T ss_pred CCCCCCCEEEEEEEeCCCCCChhhhc---------cccCCCHHHHHHh-hhhHHHHHHHHh-CCCHHHh
Confidence 89999999999999764432222222 1247999999996 888888888777 6664443
No 7
>3flo_B DNA polymerase alpha catalytic subunit A; protein-protein complex, phosphoesterase fold, OB fold, zinc motif, DNA replication, nucleus; HET: DNA; 2.50A {Saccharomyces cerevisiae}
Probab=100.00 E-value=2.5e-44 Score=383.49 Aligned_cols=177 Identities=20% Similarity=0.377 Sum_probs=143.8
Q ss_pred cchhhhcccCcceeeecCCccCCCcccccCccccCCCCcccccccCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhccc
Q psy1361 1053 EAEEVKYQFCDKFEFTCMNPSCKQVNTVEAPTRLSTHGVVFVLDECINPECKVPPYTYLPHLINKLSQDMNKYIVKYYEG 1132 (1274)
Q Consensus 1053 ~~~~~~f~~~~~~~~~C~~~~C~~~~~~~~~~~~~~~~~~~~~~~C~~~~C~~~~~~~~~~i~nql~~~ir~~i~~yy~~ 1132 (1274)
++|++||++|++|+|+|| .|+++++|+|++........++++.|++ |+..+. .++|.|||+++||++|++||+|
T Consensus 9 i~DeeRfr~c~~l~l~Cp--~C~~~~~F~gv~~~~~~~~~~sg~~C~~--C~~~~~--~~~i~nQl~l~iR~~i~~YY~g 82 (206)
T 3flo_B 9 ITDVERFKDTVTLELSCP--SCDKRFPFGGIVSSNYYRVSYNGLQCKH--CEQLFT--PLQLTSQIEHSIRAHISLYYAG 82 (206)
T ss_dssp --CTTTTTTCCCEEEECT--TTCCEEEECSSSCCSSEEEETTEEEETT--TCCBCC--HHHHHHHHHHHHHHHHHHHHHC
T ss_pred CCHHHHhCcCceeEEECC--CCCCccCCCCcccCCCcccccccccCCC--CCCcCC--HHHHHHHHHHHHHHHHHHHhcC
Confidence 899999999999999999 9999999999997532225688999985 998653 7899999999999999999999
Q ss_pred eeeeCCCCCCCcccccccccCCCCCC--CcccceeeeecChHHHHHHHHHHHHhcchhhhhhcCCCCC------------
Q psy1361 1133 WLKCEDPGCSDLTRRCPLGLKTRLCT--TCHKYKLHRVYTELQLYQQLSFFHYICDITKALTKSDTPS------------ 1198 (1274)
Q Consensus 1133 ~~~Cdd~~C~~~tr~~~~~~~~~~c~--~C~~g~~~~~ys~~~ly~qL~y~~~lfd~~~~~~~~~~~~------------ 1198 (1274)
||+||||+|+++||++|++ |.+|+ +| +|+|++||||++|||||+||++|||+++|++++.+..
T Consensus 83 wlvCdD~~C~~rTR~lsv~--g~rC~~p~C-~G~m~~eYtek~LYnQL~yf~~LFDv~~a~~k~~~~~~~~~~~~~~~~~ 159 (206)
T 3flo_B 83 WLQCDDSTCGIVTRQVSVF--GKRCLNDGC-TGVMRYKYSDKQLYNQLLYFDSLFDCEKNKKQELKPIYLPDDLDYPKEQ 159 (206)
T ss_dssp CEEESCTTTCCEESCCCSS--TTBCSSTTC-CCBEEESSCHHHHHHHHHHHHHHTCHHHHHTTCSCCSSCTTSTTCCSSC
T ss_pred CcccCCcCCCcccceeecc--CCCCCCCCC-CeeEeeeecHHHHHHHHHHHHHHhCHHHHHHHhcccccccccccccccc
Confidence 9999999999999999998 66775 89 8999999999999999999999999999998875531
Q ss_pred ------ccCChhHHHHHHHHHHHHHHHHHhcCCceechhhhhhhhc
Q psy1361 1199 ------IKFDSETYMGYCKMKQHVERFLESSAYNIVDLKKLFSCEE 1238 (1274)
Q Consensus 1199 ------~~~~~~~~~~~~~~~~~v~~~l~~~~~~~V~l~~lf~~~~ 1238 (1274)
.+|+++++..|+.|+++|++||++|||+||||++||+||.
T Consensus 160 ~~~~~~~~l~~~nr~~~~~lk~vVdkyL~~~gy~~V~L~~lF~fm~ 205 (206)
T 3flo_B 160 LTESSIKALTEQNRELMETGRSVVQKYLNDCGRRYVDMTSIFDFML 205 (206)
T ss_dssp CCHHHHHHHHHHTHHHHHHHHHHHHHHHTTC---------------
T ss_pred cchhhhhhchHHHHHHHHHHHHHHHHHHHHcCCcEEeHHHHhhhhc
Confidence 1366788889999999999999999999999999999985
No 8
>2py5_A DNA polymerase; protein-DNA complex, replication, transferase/DNA complex; HET: DNA; 1.60A {Bacillus phage PHI29} SCOP: c.55.3.5 e.8.1.1 PDB: 1xhz_A* 1xhx_A* 2ex3_A* 1xi1_A* 2pyj_A* 2pyl_A* 2pzs_A*
Probab=99.79 E-value=1.1e-19 Score=221.16 Aligned_cols=206 Identities=21% Similarity=0.233 Sum_probs=138.0
Q ss_pred cccCCceeec-cc--ccccceeEEEeeccccChhHHHH--hccccccccccccCC----C------------cccccccc
Q psy1361 624 AAYSGGLVLE-PK--KGFYDKFIILMDFNSLYPSIIQE--YNICFTTIPVRMLQD----S------------DITTLCEY 682 (1274)
Q Consensus 624 ~~Y~GGlVle-Pk--~GlYd~~VlvLDFnSLYPSII~~--yNIcptTv~~~~~~~----~------------~~~~ip~~ 682 (1274)
.+|.||.|+. |. .|++++ |+++||+|||||+|.. +++...+........ + ..+.+|.
T Consensus 224 ~~y~GGr~~~~p~y~~~~~~~-i~~~D~~SLYPs~m~~~~~P~g~p~~~~~~~~~~~~~~~~~g~v~~~v~~p~~~~P~- 301 (575)
T 2py5_A 224 YAYRGGFTWLNDRFKEKEIGE-GMVFDVNSLYPAQMYSRLLPYGEPIVFEGKYVWDEDYPLHIQHIRCEFELKEGYIPT- 301 (575)
T ss_dssp TTCCCCCEEECGGGBTCEECS-EEEEEETTHHHHHHHHSCEEEEEEEEEESSCCCCTTSCEEEEEEEEEEEECTTCCCC-
T ss_pred HcCCCccccccccccccCCCc-eEEEecCCchHHHHcCCCCCCCCceecccccccccCCccceEEEEEEEeCCcccCCc-
Confidence 5789999974 55 568887 9999999999999998 444432222110000 0 0012221
Q ss_pred CC-----------------------c-c------------------------cccCCCcHHHHHHHHHHHHHHHHHhcCC
Q psy1361 683 LP-----------------------E-H------------------------QVDTGILPSEIKKLVESRRQVKALMKQP 714 (1274)
Q Consensus 683 ~~-----------------------~-~------------------------~~~~GILP~iL~~Lle~R~~vK~~mK~~ 714 (1274)
+| . . ....|+++..+..|++.|.+.+
T Consensus 302 lpp~~~~~~~~~~li~~~~~~~~g~~~t~vd~eL~~a~~g~ki~~i~~~~~f~~~~~~f~~~i~~l~~~k~~~~------ 375 (575)
T 2py5_A 302 IQIKRSRFYKGNEYLKSSGGEIADLWLSNVDLELMKEHYDLYNVEYISGLKFKATTGLFKDFIDKWTYIKTTSE------ 375 (575)
T ss_dssp CCC-------CCSCCSBCTTSCEEEEEEHHHHHHHHHHEEEEEEEEEEEEEEEEESCTTHHHHHHHHHHHHHCC------
T ss_pred cccccccccCCCccccCCCcccceEEEecccHHHHhccCCcEEEEEEEEEEEccCCCchHHHHHHHHHHhhhCc------
Confidence 10 0 0 1248999999999999987622
Q ss_pred CCChHHHHHHHHHHHHhhccccccccCCCCCc--------------CCCC----------CHHHHHHHHHHhHHHHHHHH
Q psy1361 715 NLSSDLLMQYDIRQKALKLTANSMYGCLGFPN--------------SRFF----------AQPLAALVTAKGREILLNTK 770 (1274)
Q Consensus 715 ~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~--------------sRfy----------~~~lA~~IT~~GReiL~~tk 770 (1274)
+ ..++++|+++||+||.+|..- .+|+ +.++|++||+.||.+|..+.
T Consensus 376 ---~-------~~~~~~Kl~lNS~YGk~g~~~~~~~~~~~~~~~~~~~f~~~e~~~~~p~~v~ia~~iTa~aR~~m~~~~ 445 (575)
T 2py5_A 376 ---G-------AIKQLAKLMLNSLYGKFASNPDVTGKVPYLKENGALGFRLGEEETKDPVYTPMGVFITAWARYTTITAA 445 (575)
T ss_dssp ---H-------HHHHHHHHHHHSSHHHHTCCSBCCBEEEEECTTSSEEEEECCCCBCCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred ---H-------HHHHHHHHHHHhHhhhhccCccccceEEEecccceeeeecCcccccCcchhhHHHHHHHHHHHHHHHHH
Confidence 1 233477999999999999871 1222 25699999999999998877
Q ss_pred HHHHhcCccceeccccceeeecCCCCHHHHHHHHHHHHHHH-hhcCccEEEEeeehhhHhhccccccceEEEeeecCCCc
Q psy1361 771 SLVENLNYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSEC-NKLYKQLELDIDGVYKYMLLLKKKKYAALSISKLSNGK 849 (1274)
Q Consensus 771 e~ve~~g~~VIYGDTDSImI~~~~~d~eea~kig~eI~~~V-N~~~~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~ 849 (1274)
+.+ |.+|+||||||||+...... +. +++.+ +..... ++.|.++..++++++|+||+..+....+|+
T Consensus 446 ~~~---~~~v~Y~DTDSi~~~~~~~~--~~------l~~~~~~~~lG~--~~~E~~~~~~~f~~~K~Y~~~~~~~~~~g~ 512 (575)
T 2py5_A 446 QAC---YDRIIYCDTDSIHLTGTEIP--DV------IKDIVDPKKLGY--WAHESTFKRAKYLRQKTYIQDIYMKEVDGK 512 (575)
T ss_dssp HHT---TTTEEEEETTEEEEESSSCC--GG------GGGGBCSSSTTS--EEEEEEEEEEEEEETTEEEEEEEEEEETTE
T ss_pred HHc---CCcEEEecCCcceeccccch--hh------hhhcccccchhc--hhhhhheeeEEEeeCceEeEeecccCCCCc
Confidence 655 99999999999999852211 11 11112 222223 444568889999999999998754434777
Q ss_pred e-----------eeeeeeecce
Q psy1361 850 M-----------ICSQEIKGVD 860 (1274)
Q Consensus 850 ~-----------~~~~evKGle 860 (1274)
+ ...+.+||+-
T Consensus 513 i~~~~~~~~~~~~~~~k~KGi~ 534 (575)
T 2py5_A 513 LVEGSPDDYTDIKFSVKCAGMT 534 (575)
T ss_dssp EEECBTTBCSEEEEEEEETTCC
T ss_pred EeecccccccCcceEEEcCCCC
Confidence 6 4467899984
No 9
>1n5g_A 38-MER of DNA polymerase alpha catalytic subunit; zinc finger protein, DNA binding domain, transferase; NMR {Synthetic} SCOP: g.67.1.1
Probab=98.19 E-value=2.7e-08 Score=79.18 Aligned_cols=36 Identities=42% Similarity=0.912 Sum_probs=32.6
Q ss_pred eeeeCCCCCCCcccccccccC--CCCCCCcccceeeee
Q psy1361 1133 WLKCEDPGCSDLTRRCPLGLK--TRLCTTCHKYKLHRV 1168 (1274)
Q Consensus 1133 ~~~Cdd~~C~~~tr~~~~~~~--~~~c~~C~~g~~~~~ 1168 (1274)
||+||||+|.++||++++.++ |+.||+|++|.|.+|
T Consensus 1 wl~Cddp~C~~rtR~~~l~~~~~gp~C~~C~~g~l~~e 38 (38)
T 1n5g_A 1 WLICEEPTCRNRTRHLPLQFSRTGPLCPACMKATLQPE 38 (38)
T ss_dssp CHHHHTHHHHHHHHHTTTCSSSSCTTSTTCHHHHHTTC
T ss_pred CcccCCCCCCcceEEeEEEeecCCccCCCcCceEeEeC
Confidence 899999999999999999966 899999977998754
No 10
>1k0p_A DNA polymerase alpha catalytic subunit; zinc finger protein, DNA binding domain, transferase; HET: DNA; NMR {Synthetic} SCOP: g.67.1.1 PDB: 1k18_A*
Probab=96.80 E-value=7.4e-05 Score=56.84 Aligned_cols=29 Identities=41% Similarity=0.895 Sum_probs=26.3
Q ss_pred eeCCCCCCCcccccccccC--CCCCCCcccc
Q psy1361 1135 KCEDPGCSDLTRRCPLGLK--TRLCTTCHKY 1163 (1274)
Q Consensus 1135 ~Cdd~~C~~~tr~~~~~~~--~~~c~~C~~g 1163 (1274)
+||||.|.++||++++.++ ||.|+.|.+|
T Consensus 1 vCe~p~C~~rtrr~pl~~~~~gP~C~~C~~~ 31 (31)
T 1k0p_A 1 ICEEPTCRNRTRHLPLQFSRTGPLCPACMKA 31 (31)
T ss_dssp CCCHHHHHHHHHSTTSCSCSSSSCSTTCCCC
T ss_pred CCCCCccccceeEccEeeeccCCcCccccCC
Confidence 6999999999999999998 8999999653
No 11
>1noy_A Protein (DNA polymerase (E.C.2.7.7.7)); exonuclease, DNA-binding, complex (nucleotidyltransferase/DNA); HET: DNA; 2.20A {Enterobacteria phage T4} SCOP: c.55.3.5 PDB: 1noz_A*
Probab=95.33 E-value=0.0054 Score=71.50 Aligned_cols=41 Identities=7% Similarity=0.202 Sum_probs=27.5
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCcc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQY 602 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~ 602 (1274)
.++++|+|++|++++ |+.+.+ |+||||+||++|||+|++..
T Consensus 342 ~ela~i~g~~~~~vl-~q~~~~-~~lll~~~~~~~~i~P~~~~ 382 (388)
T 1noy_A 342 LSMSYYAKMPFSGVM-SPIKTW-DAIIFNSLKGEHKVIPQQGS 382 (388)
T ss_dssp HHHHHHHTCCGGGGG-CHHHHH-HHHHHHHTTCC---------
T ss_pred HHHhCccCCCHHHhC-ccHHHH-HHHHHHHHHhCCEEcccCCc
Confidence 799999999999999 443333 88999999999999999864
No 12
>1s5j_A DNA polymerase I; replication, disulfide bonds, transferase; HET: DNA; 2.40A {Sulfolobus solfataricus} SCOP: c.55.3.5 e.8.1.1
Probab=66.62 E-value=6.1 Score=50.58 Aligned_cols=130 Identities=11% Similarity=0.069 Sum_probs=79.6
Q ss_pred ceeEEEeeehhccccCCCCEEEEEeeeeecCCCceEEEEEEEeceeeeEEEecCCCCcCCCCccCHHHHHHHHHHHHhhc
Q psy1361 380 KVFRMFFLDAFEDIYKQPGTVYLFGKVFVKENNSHSSCCVIVQNIDRKIYLLPRSEHLKTKEPVSIAQVYSEFDQIATQY 459 (1274)
Q Consensus 380 ~~l~fyw~d~~E~~~~~~g~~~lfGKv~~~~~~~~~Sccv~v~~~~R~~y~lPr~~~~~~~~~~~~~dv~~e~~~~~~~~ 459 (1274)
..-.+|.||+.-+.....-.|.|||. +..-.++|+.|.+-. .-|+++-+.+ ++ +++.+.+.+.
T Consensus 12 ~~~~~~ll~~~y~~~~~~~vi~l~~~-----~~~~~~~~~~v~gf~-pYfyv~~~~~----------~~-~~~~~~~~~~ 74 (847)
T 1s5j_A 12 ENKIYFLLQVDYDGKKGKAVCKLFDK-----ETQKIYALYDNTGHK-PYFLVDLEPD----------KV-GKIPKIVRDP 74 (847)
T ss_dssp TTCEEEEEEEEEETTTTEEEEEEEET-----TTTEEEEEECCSCCC-CEEEESSCHH----------HH-TTCHHHHTCT
T ss_pred cCCeEEEEeeeeecCCCCeEEEEEEe-----eCCccEEEEEcCCCc-eEEEEECCcH----------HH-HHHHHHhccC
Confidence 45668999998875322235999993 223366666665554 4444432211 11 2333333332
Q ss_pred CCCceeeeeeeccccccCCCCCCccceeeEeecc--CCCCCCCCCCCCceeeeccCchhHHHHHHhhccccCCCeeeccc
Q psy1361 460 KILDFKSRKIEKKYAFNLPGVPDLSEYLEVRYSA--KCPALPSDLSGDTFSHVFGTKSSFLENLLLERKIKGPSWLEFPE 537 (1274)
Q Consensus 460 ~i~~~~~k~v~r~yaf~~~~vp~~~~yl~v~y~~--~~p~lp~~~~G~tfs~vfgt~~s~~E~fll~rki~GP~wl~i~~ 537 (1274)
. -.++..|+|.--+. .....|+||.... ..+.+-..+. .+|.++-....+|++++.|.|.+|+.+..
T Consensus 75 ~--~~~ve~v~k~~~~~----~~~~~~~ki~~~~p~~v~~~r~~l~-----~~~EadI~~~~RfliD~~i~~~~w~~~~~ 143 (847)
T 1s5j_A 75 S--FDHIETVSKIDPYT----WNKFKLTKIVVRDPLAVRRLRNDVP-----KAYEAHIKYFNNYMYDIGLIPGMPYVVKN 143 (847)
T ss_dssp T--EEEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHTTSSS-----CEESCSSCHHHHHHHHHTCCTTSEEEEET
T ss_pred C--ceEEEEEEeEeccC----CCceeEEEEEEeCHHHHHHHHHHhh-----hheecCCchHhhhheecCccceEEEEEec
Confidence 2 47788888863232 2345788887653 2222211222 79999999999999999999999998765
No 13
>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 3maq_A* 1q8i_A*
Probab=43.83 E-value=7.7 Score=49.26 Aligned_cols=121 Identities=19% Similarity=0.222 Sum_probs=72.7
Q ss_pred EEeeehhccccCCCCEEEEEeeeeecCCCceEEEEEEEeceeeeEEEecCCCCcCCCCccCHHHHHHHHHHHHhhcCCCc
Q psy1361 384 MFFLDAFEDIYKQPGTVYLFGKVFVKENNSHSSCCVIVQNIDRKIYLLPRSEHLKTKEPVSIAQVYSEFDQIATQYKILD 463 (1274)
Q Consensus 384 fyw~d~~E~~~~~~g~~~lfGKv~~~~~~~~~Sccv~v~~~~R~~y~lPr~~~~~~~~~~~~~dv~~e~~~~~~~~~i~~ 463 (1274)
=|.||.+-......-.|.|||+-. .+ ..||.|.+ +|..|+.|.+. . ..+..+... ...
T Consensus 8 g~~l~~~~~~~~~g~~i~~~g~t~---~G---~~~v~v~~-~~~yfy~~~~~---------~----~~~~~~~~~--~~~ 65 (786)
T 3k59_A 8 GFILTRHWRDTPQGTEVSFWLATD---NG---PLQVTLAP-QESVAFIPADQ---------V----PRAQHILQG--EQG 65 (786)
T ss_dssp EEEEEEEEEEETTEEEEEEEEEET---TE---EEEEECSC-CCEEEEEEGGG---------H----HHHHHHTTT--CCS
T ss_pred cEEEeeEEEEeCCceEEEEEEEcC---CC---CEEEEEcC-CceEEEEECCc---------H----HHHHHHHhc--CCc
Confidence 355555522222345788999853 22 39999976 89999998651 1 123333322 346
Q ss_pred eeeeeeeccccccCCCCCCccceeeEeecc--CCCCCCCCC--CCCceeeeccCchhHHHHHHhhccccCCCeeecc
Q psy1361 464 FKSRKIEKKYAFNLPGVPDLSEYLEVRYSA--KCPALPSDL--SGDTFSHVFGTKSSFLENLLLERKIKGPSWLEFP 536 (1274)
Q Consensus 464 ~~~k~v~r~yaf~~~~vp~~~~yl~v~y~~--~~p~lp~~~--~G~tfs~vfgt~~s~~E~fll~rki~GP~wl~i~ 536 (1274)
+..+++..+ .|.. . .+++|..+. ..+.+-..+ .| + .+|+++-....+|++++.|.|..|+...
T Consensus 66 ~~~~~~~l~-~~~~--~----~~~~i~~~~~~~~~~~r~~l~~~g--~-~v~EadI~~~~RfliD~~i~~~~w~~~~ 132 (786)
T 3k59_A 66 FRLTPLALK-DFHR--Q----PVYGLYCRAHRQLMNYEKRLREGG--V-TVYEADVRPPERYLMERFITSPVWVEGD 132 (786)
T ss_dssp EEEEEEEEE-CTTC--C----EEEEEEESSHHHHHHHHHHHHHTT--C-CCBSTTCCHHHHHHHHTTCSSEEEEEEE
T ss_pred eEEEEeeee-eecC--c----eEEEEEECCHHHHHHHHHHHHHcC--C-ceeeccCChhheeeEecCcccceEEEEe
Confidence 788887655 5642 1 334443321 111110011 13 2 7999999999999999999999998754
No 14
>2d74_B Translation initiation factor 2 beta subunit; protein complex; 2.80A {Pyrococcus furiosus} PDB: 2dcu_B*
Probab=20.42 E-value=94 Score=31.66 Aligned_cols=40 Identities=23% Similarity=0.517 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHhhccceeeeCCCCCCCcccccccccC--CCCCCCc
Q psy1361 1115 INKLSQDMNKYIVKYYEGWLKCEDPGCSDLTRRCPLGLK--TRLCTTC 1160 (1274)
Q Consensus 1115 ~nql~~~ir~~i~~yy~~~~~Cdd~~C~~~tr~~~~~~~--~~~c~~C 1160 (1274)
..+|+..++.+|.+| ..| ++|++.--.+..... ...|-.|
T Consensus 90 ~~~i~~~L~~yI~~y----VlC--~~C~sPdT~L~k~~r~~~l~C~AC 131 (148)
T 2d74_B 90 PYLIANKLKKYIKEY----VIC--PVCGSPDTKIIKRDRFHFLKCEAC 131 (148)
T ss_dssp HHHHHHHHHHHHHHH----SSC--SSSCCTTCCCCBSSSSBCCCCSSS
T ss_pred HHHHHHHHHHHHHHE----EEC--CCCCCcCcEEEEeCCEEEEEecCC
Confidence 467888888999998 679 799986544443332 4569899
Done!