Query 042710
Match_columns 237
No_of_seqs 217 out of 1052
Neff 6.8
Searched_HMMs 29240
Date Mon Mar 25 15:11:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042710.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042710hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1dj0_A Pseudouridine synthase 100.0 1.6E-75 5.5E-80 515.7 25.9 207 22-234 1-207 (264)
2 1vs3_A TRNA pseudouridine synt 100.0 6.3E-75 2.2E-79 508.2 20.6 202 24-234 1-207 (249)
3 2v9k_A Uncharacterized protein 96.6 0.023 7.8E-07 53.9 12.7 156 48-222 317-486 (530)
4 2hh8_A Hypothetical protein YD 43.6 12 0.0004 29.6 2.2 31 157-187 69-100 (149)
5 3rd4_A Uncharacterized protein 32.8 19 0.00064 26.5 1.7 16 30-45 71-86 (100)
6 2l0c_A Putative membrane prote 29.0 16 0.00055 26.6 0.8 18 30-47 70-87 (97)
7 3q6c_A Probable receptor YHHM; 28.8 26 0.0009 24.8 1.8 16 30-45 67-82 (83)
8 2aus_C Pseudouridine synthase; 22.8 3.8E+02 0.013 23.3 9.6 87 126-232 99-190 (334)
9 2apo_A Probable tRNA pseudouri 18.3 5E+02 0.017 22.9 9.5 82 126-226 119-205 (357)
10 1k8w_A TRNA pseudouridine synt 18.0 4.9E+02 0.017 22.7 8.8 112 114-226 67-198 (327)
No 1
>1dj0_A Pseudouridine synthase I; alpha/beta fold, RNA-binding motif, RNA-modifying enzyme, lyase; 1.50A {Escherichia coli} SCOP: d.265.1.1 PDB: 2nqp_A 2nr0_A 2nre_A
Probab=100.00 E-value=1.6e-75 Score=515.69 Aligned_cols=207 Identities=33% Similarity=0.515 Sum_probs=196.3
Q ss_pred CCceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHH
Q 042710 22 FPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLES 101 (237)
Q Consensus 22 ~~~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~ 101 (237)
.||+||+|.|+||||+|+|||+||+.+|||++||+||.++.+ +++.+++||||||||||++||+||+++... +++.
T Consensus 1 ~Pm~r~~l~i~YdGt~y~GwQ~Q~~~~TVq~~Le~AL~~~~~---~~v~~~~agRTDaGVHA~gqv~~f~~~~~~-~~~~ 76 (264)
T 1dj0_A 1 PPVYKIALGIEYDGSKYYGWQRQNEVRSVQEKLEKALSQVAN---EPITVFCAGRTDAGVHGTGQVVHFETTALR-KDAA 76 (264)
T ss_dssp CCCEEEEEEEEECCTTSSCSCCTTCSSCHHHHHHHHHHHHHT---SCCCEEESSCCCTTCEEEEEEEEEEESCCC-CHHH
T ss_pred CCccEEEEEEEEeCCCceeEEECcCCCCHHHHHHHHHHHHhC---CCeEEEEeccCCCCCchhhEEEEEEECCCC-CHHH
Confidence 378999999999999999999999999999999999999974 589999999999999999999999998764 5889
Q ss_pred HHHHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccc
Q 042710 102 IHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFS 181 (237)
Q Consensus 102 l~~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~ 181 (237)
|..+||++||+||+|+++.+|+++|||||+|++|+|+|+|++....+||.++|+|++..+||+++|++|++.|+|+|||+
T Consensus 77 ~~~~lN~~LP~dI~V~~~~~V~~~FhARf~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~lD~~~M~~aa~~l~G~HDF~ 156 (264)
T 1dj0_A 77 WTLGVNANLPGDIAVRWVKTVPDDFHARFSATARRYRYIIYNHRLRPAVLSKGVTHFYEPLDAERMHRAAQCLLGENDFT 156 (264)
T ss_dssp HHHHHHHTSCTTEEEEEEEECCTTCCTTTTCCEEEEEEEEECSSSCCCTTTTSSEECCSCCCHHHHHHHHGGGCEEEECG
T ss_pred HHHHHHhhCCcCeEEEEEEeCCCCCCcccccccEEEEEEEccCCCCChhHcCceEeeCCCCCHHHHHHHHHHhcCcccHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 182 AFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 182 ~F~~~~~~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
|||+.++ +.++++|+|++++|.+.++++.|+|+|+||||||||+|||+++.
T Consensus 157 ~F~~~~~--~~~s~vR~I~~~~v~~~~~~i~~~i~g~~FL~~mVR~mvG~L~~ 207 (264)
T 1dj0_A 157 SFRAVQC--QSRTPWRNVMHINVTRHGPYVVVDIKANAFVHHMVRNIVGSLME 207 (264)
T ss_dssp GGCCTTC--CCSCCEEEEEEEEEEEETTEEEEEEEESCCCTTHHHHHHHHHHH
T ss_pred HhccCCC--CCCCcEEEEEEEEEEECCCEEEEEEEEchHHHHHHHHHHHHHHH
Confidence 9998754 35789999999999999999999999999999999999997764
No 2
>1vs3_A TRNA pseudouridine synthase A; TRUA, tRNA modification, structural NPPSFA, national project on protein structural and function analyses; 2.25A {Thermus thermophilus}
Probab=100.00 E-value=6.3e-75 Score=508.16 Aligned_cols=202 Identities=32% Similarity=0.413 Sum_probs=191.5
Q ss_pred ceeEEEEEEEeCCCceeeeeCCCC-CcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHH
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESI 102 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~~-~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l 102 (237)
|+||+|.|+||||+|+|||+||+. +|||++||+||.++ + +++++++||||||||||++||+||+++.+. +++.|
T Consensus 1 M~r~~l~i~YdGt~y~GwQ~Q~~~~~TVq~~Le~AL~~~-~---~~v~~~~agRTDaGVHA~gqv~~f~~~~~~-~~~~~ 75 (249)
T 1vs3_A 1 MRRLLLLCEYDGTLFAGLQRQGRGLRTVQGELERALPGI-G---ALPKAVAAGRTDAGVHALAMPFHVDVESAI-PVEKV 75 (249)
T ss_dssp CEEEEEEEEECGGGCSBSSCCCTTCCCHHHHHHHHGGGG-T---BCSCCEESSCCBTTCEEEEEEEEEEECSCC-CGGGH
T ss_pred CcEEEEEEEEECCCceeEeECCCCCCCHHHHHHHHHHHc-C---CcceEEEeccCcCCcCccccEEEEEECCCC-CHHHH
Confidence 679999999999999999999999 99999999999999 3 589999999999999999999999998764 57889
Q ss_pred HHHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhccccccccc
Q 042710 103 HAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSA 182 (237)
Q Consensus 103 ~~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~ 182 (237)
..+||++||+||+|+++.+|+++|||||+|++|+|+|+|++...++||.++|+|+++.+||+++|++|++.|+|+|||+|
T Consensus 76 ~~~lN~~LP~dI~V~~~~~v~~~FhARf~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ldi~~m~~aa~~l~G~HDF~~ 155 (249)
T 1vs3_A 76 PEALNRLLPEDLKVVGAREVAPDFHARKDALWRAYRYRILVRPHPSPLLRHRALWVRRPLDLEAMEEALSLLLGRHNFLG 155 (249)
T ss_dssp HHHHHHHSCTTEEEEEEEEECTTCCTTTTCSEEEEEEEEEECSSCCTTTTTTSEEECSCCCHHHHHHHHHHHSEEEEGGG
T ss_pred HHHHHhcCCcCEEEEEEEECCCCCCcccccccEEEEEEEccCCCCChhhCCeeEEeCCCCCHHHHHHHHHHhcCceeHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCCCCCcEEEEEEEEE----EeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 183 FVNIQRNDRALNPVKSIFRFDVI----EMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 183 F~~~~~~~~~~~~vR~I~~~~i~----~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
||+..+ ++++|+|++++|. +.++++.|+|+|+||||||||+|||+++.
T Consensus 156 F~~~~~----~~~vR~I~~~~v~~~~~~~~~~i~~~i~g~~FL~~mVR~mvG~l~~ 207 (249)
T 1vs3_A 156 FAKEET----RPGERELLEARLQVAEGEAGLEVRLYFRGKSFLRGQVRGMVGTLLE 207 (249)
T ss_dssp GCSSCC----SCCEEEEEEEEEEEEECSSSEEEEEEEEESCCCTTHHHHHHHHHHH
T ss_pred eecCCC----CCCCcEEEEEEEEeccccCCCEEEEEEEEChHHHHHHHHHHHHHHH
Confidence 998643 6899999999998 67789999999999999999999997765
No 3
>2v9k_A Uncharacterized protein FLJ32312; pseudouridine synthase, PUS10, RNA modification, thump domai; HET: EPE; 2.0A {Homo sapiens}
Probab=96.63 E-value=0.023 Score=53.91 Aligned_cols=156 Identities=13% Similarity=0.183 Sum_probs=102.0
Q ss_pred CcHHHHHHHHHHHhccccccceeeeecccCCCcccccCc----EEEEEeCCCC----CCHHHHHHHHHccCCCCeEEeee
Q 042710 48 PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ----VAHFITPFSY----DGLESIHAALNGLLPPDIRVREI 119 (237)
Q Consensus 48 ~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~q----v~~~~~~~~~----~~~~~l~~~lN~~LP~dIrV~~~ 119 (237)
.|||+.|...+..... .....+++|||-|.-|--+|. |+.+.-|... .+.+.+...+|+ .-..|.|.+.
T Consensus 317 ~SVee~I~~~i~~~f~--~~~~~Fh~sGREDvDVRmLG~GRPFvlEi~~P~r~~~~~~dl~~le~~IN~-~~~~V~V~~L 393 (530)
T 2v9k_A 317 SSVEELISDHLLAVFK--AESFNFSSSGREDVDVRTLGNGRPFAIELVNPHRVHFTSQEIKELQQKINN-SSNKIQVRDL 393 (530)
T ss_dssp CCHHHHHHTTHHHHHT--CSEEEEEESSCCCTTCEEEEEEEEEEEEEESCSCCCCCHHHHHHHHHHHHT-TCSSEEEEEE
T ss_pred CCHHHHHHHHHHHhcC--CCeEEEeecCCCCCceeecCCCCcEEEEecCccccccchhHHHHHHHHHhc-cCCcEEEEee
Confidence 6999999988887765 467999999999999999997 5555444322 135667889998 3456999999
Q ss_pred eecCCCCcccc----cccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhccccccccccccccc-cCCCCC
Q 042710 120 SAAVPEFHARF----SAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQR-NDRALN 194 (237)
Q Consensus 120 ~~v~~~FhaR~----~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F~~~~~-~~~~~~ 194 (237)
..++..=-.+. .-+.|+|.=.++. ..+++.+.++++.. |.|---+.---.... ......
T Consensus 394 ~~v~~~~~~~ik~ge~~~~K~Y~alv~~---------------~~~v~~e~l~~~~~-l~~l~I~QrtP~RV~hRR~~~~ 457 (530)
T 2v9k_A 394 QLVTREAIGHMKEGEEEKTKTYSALIWT---------------NKAIQKKDIEFLND-IKDLKIDQKTPLRVLHRRPLAV 457 (530)
T ss_dssp EEECTHHHHHHHHHHHHCCEEEEEEEEE---------------SSCCCHHHHGGGGG-CCSEEEEEECCGGGTTTSCCCE
T ss_pred EEEcHHHHHHHhcccccCCeEEEEEEEE---------------cCCCCHHHHHHHHh-cCCceeeccCCeEEEEecCCCc
Confidence 98874321111 1245788866543 34577777777655 655222111000000 011112
Q ss_pred CcEEEEEEEEEE-eCcEEEEEEEeCccch
Q 042710 195 PVKSIFRFDVIE-MGALLQLEVEGSGFLY 222 (237)
Q Consensus 195 ~vR~I~~~~i~~-~~~~~~i~i~G~sFL~ 222 (237)
-.|+|+++++.+ .+..+.+.|..++=+|
T Consensus 458 R~R~I~~i~~~~~~~~~~~l~i~~eaGtY 486 (530)
T 2v9k_A 458 RARVIHFMETQYVDEHHFRLHLKTQAGTY 486 (530)
T ss_dssp EEEEEEEEEEEEEETTEEEEEEEECTTCC
T ss_pred cceEEEEEEEEEecCCEEEEEEEecCCCE
Confidence 479999999876 5678899999887555
No 4
>2hh8_A Hypothetical protein YDFO; structure, autostructure, NESG, PSI-2, northeast structural genomics consortium, protein structure initiative; NMR {Escherichia coli} SCOP: d.358.1.1
Probab=43.57 E-value=12 Score=29.56 Aligned_cols=31 Identities=6% Similarity=0.100 Sum_probs=25.9
Q ss_pred ccCCCCCHHHHHHHHhh-cccccccccccccc
Q 042710 157 HSVYKLNTTLMREAAEY-FVGKHDFSAFVNIQ 187 (237)
Q Consensus 157 ~~~~~ld~~~m~~a~~~-~~G~HDF~~F~~~~ 187 (237)
.+....|.++++++++. ..|+.||-.||...
T Consensus 69 ~Va~~~n~~~ik~~lk~hQaG~tdF~tFC~~~ 100 (149)
T 2hh8_A 69 SVKFSKDRHLIETTSNKLKSREITFQEYRRNL 100 (149)
T ss_dssp CCCSCCCHHHHHHHHHHHHHTCCCHHHHHHHH
T ss_pred eecCcCCHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence 45677899999998876 77999999999753
No 5
>3rd4_A Uncharacterized protein; structural genomics, PSI-biology, northeast structural genom consortium, NESG, propen_03304, unknown function; 2.90A {Proteus penneri}
Probab=32.75 E-value=19 Score=26.45 Aligned_cols=16 Identities=13% Similarity=0.362 Sum_probs=14.4
Q ss_pred EEEEeCCCceeeeeCC
Q 042710 30 VIGYDGTRYAGWQFQT 45 (237)
Q Consensus 30 ~i~YdGt~y~G~Q~Q~ 45 (237)
.+.|.||+|-||..++
T Consensus 71 ~Lt~QGTRFi~F~~~~ 86 (100)
T 3rd4_A 71 RLFMQGSRFVQFETDV 86 (100)
T ss_dssp EEEEETTEEEEEEECC
T ss_pred EEEEeeeEEEEeecCC
Confidence 5789999999999987
No 6
>2l0c_A Putative membrane protein; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative; NMR {Salmonella enterica subsp}
Probab=29.00 E-value=16 Score=26.60 Aligned_cols=18 Identities=33% Similarity=0.743 Sum_probs=15.2
Q ss_pred EEEEeCCCceeeeeCCCC
Q 042710 30 VIGYDGTRYAGWQFQTSP 47 (237)
Q Consensus 30 ~i~YdGt~y~G~Q~Q~~~ 47 (237)
++.|.||+|-||++.++.
T Consensus 70 ~Lt~QGTRfl~Fer~~~~ 87 (97)
T 2l0c_A 70 TLSYKGTRFVGFVSRTPD 87 (97)
T ss_dssp EEEEETTEEEEEECSSCG
T ss_pred EEEEeeeeEEeeecCCCc
Confidence 578999999999997653
No 7
>3q6c_A Probable receptor YHHM; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 2.60A {Klebsiella variicola at-22}
Probab=28.85 E-value=26 Score=24.76 Aligned_cols=16 Identities=19% Similarity=0.586 Sum_probs=13.7
Q ss_pred EEEEeCCCceeeeeCC
Q 042710 30 VIGYDGTRYAGWQFQT 45 (237)
Q Consensus 30 ~i~YdGt~y~G~Q~Q~ 45 (237)
.+.|.||+|.+|...+
T Consensus 67 ~Lt~QGTRF~~F~~~~ 82 (83)
T 3q6c_A 67 MLSYKGTAFVAFTPDP 82 (83)
T ss_dssp EEEEETTEEEEEEECC
T ss_pred EEEEeeeEEEEEecCC
Confidence 5889999999998754
No 8
>2aus_C Pseudouridine synthase; isomerase, structural protein, isomerase-structural protein; 2.10A {Pyrococcus abyssi} PDB: 3lwr_A 3lwo_A* 3lwq_A* 3lwp_A 3lwv_A 3hax_A* 2hvy_A* 3hay_A* 2ey4_A 2rfk_A 3mqk_A 3hjw_A* 3hjy_A
Probab=22.81 E-value=3.8e+02 Score=23.33 Aligned_cols=87 Identities=9% Similarity=0.133 Sum_probs=51.8
Q ss_pred CcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccc--ccccccccCCCCCCcEEEEEEE
Q 042710 126 FHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFS--AFVNIQRNDRALNPVKSIFRFD 203 (237)
Q Consensus 126 FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~--~F~~~~~~~~~~~~vR~I~~~~ 203 (237)
+-.......|+|+=.+..+. .++.+.++++++.|.|+..=. .|+..+ .+...++|++++
T Consensus 99 ~~~~l~~~~K~Y~~~~~lg~---------------~~~~~~i~~~l~~f~G~i~Q~pP~~SA~k----~~~R~v~I~~~~ 159 (334)
T 2aus_C 99 VVQALLPAGKEYVALMHLHG---------------DVPEDKIRAVMKEFEGEIIQRPPLRSAVK----RRLRTRKVYYIE 159 (334)
T ss_dssp GGGGGTTCCEEEEEEEEESS---------------CCCHHHHHHHHHHTSEEEECC----------------EEEEEEEE
T ss_pred hHHHhcccCcEEEEEEEECC---------------CCCHHHHHHHHHhCcCeEEEeCCccccCc----CCcCCEEEEEEE
Confidence 44445556899998886542 467899999999999987422 222221 123357899998
Q ss_pred EEE-eCcEEEEEEE--eCccchHhHHHHHHHH
Q 042710 204 VIE-MGALLQLEVE--GSGFLYRQVRNMVNHS 232 (237)
Q Consensus 204 i~~-~~~~~~i~i~--G~sFL~~qVR~mVG~~ 232 (237)
+.+ ..+.+.|+|+ .--.++..+| -+|.+
T Consensus 160 ~~~~~~~~~~~~v~cs~GTYIRsL~~-Dig~~ 190 (334)
T 2aus_C 160 ILEIDGRDVLFRVGVEAGTYIRSLIH-HIGLA 190 (334)
T ss_dssp EEEEETTEEEEEEEECTTCCHHHHHH-HHHHH
T ss_pred EEEeeCCeEEEEEEECCCcHHHHHHH-HHHHH
Confidence 876 4556655554 3345555555 34433
No 9
>2apo_A Probable tRNA pseudouridine synthase B; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: b.122.1.1 d.265.1.2
Probab=18.26 E-value=5e+02 Score=22.90 Aligned_cols=82 Identities=9% Similarity=0.116 Sum_probs=50.4
Q ss_pred CcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccc--ccccccccCCCCCCcEEEEEEE
Q 042710 126 FHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFS--AFVNIQRNDRALNPVKSIFRFD 203 (237)
Q Consensus 126 FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~--~F~~~~~~~~~~~~vR~I~~~~ 203 (237)
+-.......|+|+=.+..+. .++.+.++++++.|.|+..=. .|+..+ .+...++|++++
T Consensus 119 ~~~~l~~~~K~Y~~~~~lG~---------------~~~~~~i~~~l~~f~G~i~Q~PP~~SAvK----~~~R~v~I~~~~ 179 (357)
T 2apo_A 119 TIPMWHIPPKEYVCLMHLHR---------------DASEEDILRVFKEFTGRIYQRPPLKAAVK----RRLRIRKIHELE 179 (357)
T ss_dssp GGGGTTSSCEEEEEEEEESS---------------CCCHHHHHHHHHHHSEEEECC---------------CEEEEEEEE
T ss_pred HHHHhccCCcEEEEEEEECC---------------CCCHHHHHHHHHhCcccEEEeCCchhhcc----ccccceeEEEEE
Confidence 44455567899998886542 467899999999999986422 232221 123457899999
Q ss_pred EEE-eCcEEEEEEE--eCccchHhHH
Q 042710 204 VIE-MGALLQLEVE--GSGFLYRQVR 226 (237)
Q Consensus 204 i~~-~~~~~~i~i~--G~sFL~~qVR 226 (237)
+.+ ..+.+.|+|. .--.++..+|
T Consensus 180 l~~~~~~~~~~~v~cs~GTYIRsL~~ 205 (357)
T 2apo_A 180 LLDKDGKDVLFRVKCQSGTYIRKLCE 205 (357)
T ss_dssp EEEEETTEEEEEEEECTTCCHHHHHH
T ss_pred EEEeeCCEEEEEEEECCCchHHHHHH
Confidence 876 4556655554 3445555555
No 10
>1k8w_A TRNA pseudouridine synthase B; protein-RNA complex, T stem-loop, lyase/RNA complex; HET: FHU; 1.85A {Escherichia coli} SCOP: b.122.1.1 d.265.1.2 PDB: 1zl3_A* 1r3f_A
Probab=17.98 E-value=4.9e+02 Score=22.71 Aligned_cols=112 Identities=12% Similarity=0.128 Sum_probs=60.8
Q ss_pred eEEeeeeecCCCCcccccccceEEEEEeecCCCCCcccc--ccccccCCCCCHHHHHHHHhhcccccccc--cccccccc
Q 042710 114 IRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQH--HYAYHSVYKLNTTLMREAAEYFVGKHDFS--AFVNIQRN 189 (237)
Q Consensus 114 IrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~--~~~~~~~~~ld~~~m~~a~~~~~G~HDF~--~F~~~~~~ 189 (237)
+-+..+-+..+ +-.......|+|+=.+..+..-+-... .-.-..+..++.+.++++++.|.|+..=. .|+..+.+
T Consensus 67 vL~i~~G~aTK-l~~~l~~~~K~Y~a~~~lG~~TdT~D~eG~v~~~~~~~~t~e~i~~~l~~f~G~i~Q~PP~~SAvKv~ 145 (327)
T 1k8w_A 67 MLPICLGEATK-FSQYLLDSDKRYRVIARLGQRTDTSDADGQIVEERPVTFSAEQLAAALDTFRGDIEQIPSMYSALKYQ 145 (327)
T ss_dssp EEEEEEGGGGG-GTHHHHTSCEEEEEEEEETEEESSSBTTSCEEEECCCCCCHHHHHHHHHTTSEEEEECCCSSSCCEET
T ss_pred EEEEEECHHHh-HHHHhccCCcEEEEEEEECCcccCCCCCCCEEeecCCCCCHHHHHHHHHhccceEEEeCChhheeccC
Confidence 33444444333 444445557999888865532211110 00001112478999999999999998643 34422210
Q ss_pred -------------CCCCCCcEEEEEEEEEE-eCcEEEEEEE--eCccchHhHH
Q 042710 190 -------------DRALNPVKSIFRFDVIE-MGALLQLEVE--GSGFLYRQVR 226 (237)
Q Consensus 190 -------------~~~~~~vR~I~~~~i~~-~~~~~~i~i~--G~sFL~~qVR 226 (237)
-+.+....+|+++++.+ ..+.+.|+|. .--+++..+|
T Consensus 146 GkraYelAR~G~~ve~~~R~v~I~~i~ll~~~~~~~~~~v~CskGTYIRsL~~ 198 (327)
T 1k8w_A 146 GKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHCSKGTYIRTIID 198 (327)
T ss_dssp TEEHHHHHHTTCCCCCCCEEEEEEEEEEEEEETTEEEEEEEECTTCCHHHHHH
T ss_pred CccHHHHHhCCCcccccceEEEEEEEEEEEeeCCEEEEEEEEcCCchHHHHHH
Confidence 01223457889998866 4455555544 4445666655
Done!