Query 008852
Match_columns 551
No_of_seqs 294 out of 693
Neff 4.6
Searched_HMMs 29240
Date Mon Mar 25 13:14:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008852.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/008852hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3pla_A NOP5, PRE mRNA splicing 100.0 2E-112 6E-117 888.0 27.6 369 2-400 4-378 (388)
2 2nnw_A NOP5/NOP56 related prot 100.0 2E-106 7E-111 841.9 27.1 358 2-397 13-376 (376)
3 3icx_A PRE mRNA splicing prote 100.0 7.6E-91 2.6E-95 692.9 19.0 243 155-400 2-245 (255)
4 2ozb_B U4/U6 small nuclear rib 100.0 3.5E-88 1.2E-92 676.6 20.5 245 154-398 14-260 (260)
5 3id6_A NOP5, PRE mRNA splicing 100.0 1.1E-69 3.6E-74 544.9 23.2 254 2-282 4-263 (268)
6 1nt2_B Conserved hypothetical 100.0 4E-71 1.4E-75 551.0 9.9 207 129-398 46-257 (258)
7 3gqu_A NOP5P protein; RNA bind 100.0 6.2E-51 2.1E-55 382.4 3.0 135 263-400 16-150 (169)
8 3swh_A MUNC13-1, protein UNC-1 53.9 55 0.0019 33.7 9.7 185 104-312 49-261 (341)
9 2a1j_A DNA repair endonuclease 44.0 15 0.00051 28.7 2.9 41 288-328 12-56 (63)
10 4fbj_A CIF, hypothetical prote 40.9 9.6 0.00033 37.5 1.6 72 297-371 99-181 (261)
11 1x2i_A HEF helicase/nuclease; 32.5 30 0.001 26.6 3.0 35 288-322 22-59 (75)
12 4ehp_B Catenin alpha-1; adhere 29.4 59 0.002 28.7 4.5 50 224-279 34-83 (111)
13 2a1j_B DNA excision repair pro 29.2 44 0.0015 27.3 3.6 35 288-322 40-77 (91)
14 1kea_A Possible G-T mismatches 28.9 3.3E+02 0.011 25.7 10.2 21 169-189 4-24 (221)
15 3efy_A CIF (cell cycle inhibit 24.1 41 0.0014 31.8 2.7 58 304-363 44-106 (195)
16 3a5i_A Flagellar biosynthesis 23.2 1.8E+02 0.0061 30.5 7.7 62 224-287 299-369 (389)
17 1z00_A DNA excision repair pro 22.1 42 0.0014 27.2 2.1 42 288-329 27-73 (89)
No 1
>3pla_A NOP5, PRE mRNA splicing protein; RNA-binding, SAM, box C/D RNA; HET: SAH; 3.15A {Sulfolobus solfataricus} PDB: 3id5_A*
Probab=100.00 E-value=1.7e-112 Score=887.96 Aligned_cols=369 Identities=32% Similarity=0.471 Sum_probs=350.2
Q ss_pred EEeeeccceeeEEEecCcCcccchhhHHHHhcCHHHhhccEEeeeeecCC-CHHHHHHHHHHhhhcCCCHHHHHHHHhcC
Q 008852 2 LVLFETPAGFALFKVLDEGKLSKVEGLWQEFNSAESARQIVKLKAFSKFE-NTSEALKAATCLLESKPSKDLRKFLRTHC 80 (551)
Q Consensus 2 ~vLfEt~~GyaLFkv~~~~~~~~~~~~~~~~~~~~~~~~~vkL~~f~~F~-~~~~Al~~~~~i~eg~~~~~L~~fL~~~~ 80 (551)
..|+|++.||..| |++ .+|++|.||+ |+++||+++++|++|++++.|++||+.++
T Consensus 4 ~yl~~~~~G~~a~---de~---------------------~~l~~~~~f~~s~~~ale~~~~i~eg~~~~~L~~fL~~~~ 59 (388)
T 3pla_A 4 IYLIEHVIGAVAY---DEN---------------------GNIVDYITNPRDLGKITEELLNNEKGIPFSATVELLKKVN 59 (388)
T ss_dssp EEEEEETTEEEEE---CSS---------------------SCEEEEEECCSCHHHHHHHHHHHHTTCCCHHHHHHHHHSC
T ss_pred EEEEecceeeEEE---CCC---------------------CCeEeecCCCCCHHHHHHHHHHHhcCCCCHHHHHHHHHhC
Confidence 5799999999999 331 2889999997 99999999999999999999999999998
Q ss_pred CCCeEEEeccchhHHHHhhhCCccccchHHHHHHHHHHHhHHHHhc--CCC--CCChhhhhhhhhhhhhhhhhccccchh
Q 008852 81 DGETLAVADSKLGNAIKDKLKIECVHNNAVMELMRGVRSQLTELIS--GLA--GQDLQPMSLGLSHSLSRYKLKFSADKV 156 (551)
Q Consensus 81 ~~~~L~V~D~kL~~~I~~~l~i~~~~~~~v~el~RgIR~~~~~ll~--~l~--~~d~~~~~lgLshslsr~Klk~s~~k~ 156 (551)
+ .+|+|+|++||.+|++. ||+|.+. ....++|+||.|+++++. |+. ++|+..|++||+|++||+||+|+++++
T Consensus 60 ~-~~l~V~d~~L~~~i~~~-~~~~~~~-~~~~~~~~iR~~~~~~~~~~g~~~~~~d~~~~~~~l~~~~sr~kvk~~~~k~ 136 (388)
T 3pla_A 60 P-QEVVVENEAEVPKLQAL-GYRVSYE-PYSKVSRIFRESLPKVAIDIKFASNEEDYYNFLHELSLEYTRRKLRSAAQKR 136 (388)
T ss_dssp C-SEEEESCTTTHHHHHHT-TCEEEEC-TTCHHHHHHHHTTTTHHHHTTSSSSSHHHHHHHHHHHHHHHHHHHHHHHTCT
T ss_pred C-CeEEEECHHHHHHHHHc-CCCeeec-CchHHHHHHHHhHHHHhHhcCCCCChHHHHHHHHHHHHHHHHHHHhhCCCcc
Confidence 7 67999999999999974 9999742 234567889999999996 666 778999999999999999999999999
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHHHhccCccchhhccCcHHHHHHHHHhcCCCCCCccccccc-CcHHHHHHHHHH
Q 008852 157 DTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEA 235 (551)
Q Consensus 157 D~~IVqai~llddLDkeIn~~~~rvREwY~~hFPEL~~Iv~d~~~YakvV~~ig~r~n~~~~dL~~i-L~~e~~~~v~~a 235 (551)
|+||||||+++|+||+|||+||||||||||||||||++||+||++|+++|+.||+|.|++..+|+++ +|+++++.|.++
T Consensus 137 D~~Ivqai~lld~iDkein~~~~rvrewY~~hFPEL~~iV~d~~~Yak~V~~ignr~~~~~~~l~~l~l~~~~~~~I~~a 216 (388)
T 3pla_A 137 DLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGFLTIDSLKELGFNEQRINRILDA 216 (388)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCGGGTTTCCCHHHHHHHHHHTCSGGGCCHHHHHTTTCCHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcchhhhcCCHHHHHHHHHHhcCcccCChhhHhhcCCCHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999 899999999999
Q ss_pred HhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCchhhhhchHHHHHHHHhhCCcchhccCCchhhh
Q 008852 236 AMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQ 315 (551)
Q Consensus 236 A~~SmG~~lse~Dl~~I~~~~~~vi~L~e~R~~L~~YL~srM~~IAPNLtaLVG~~vaArLIs~AGsL~~LAK~PAStIQ 315 (551)
|++|||++||++|+.+|..+|++|++|+++|++|.+||++||..||||||+|||+.||||||+|||||.+||||||||||
T Consensus 217 A~~SmG~~ls~~dl~~I~~~~~~v~~L~e~R~~L~~Yl~srM~~iAPNLsaLvG~~vaArLIs~AGgL~~LAK~PAstIQ 296 (388)
T 3pla_A 217 AKKSIGADISEDDLSAMRMIANTILDLYNIRRNLNNYLEGVMKEVAPNVTALVGPALGARLLSIAGSLDELAKMPASTIQ 296 (388)
T ss_dssp HHTCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHSSHHHHHTSCHHHHT
T ss_pred HHhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCcHHHHhccHHHHHHHHHcCCHHHHhhCChHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhchhhhhhhhhhccCCCCceEEEeeccccccCCcccccchhHhhhhhhHHHHhhhccCCCCCChhhHHHHHHHHHHHHH
Q 008852 316 ILGAEKALFRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSMGLENRAKLEARLRN 395 (551)
Q Consensus 316 iLGAEKALFraLkt~~~tPKyGlIy~s~lV~~ap~k~kgKiaR~LAaK~aLAARvDa~~~~~d~~~G~~~re~Ie~rl~~ 395 (551)
||||||||||||+|+++||||||||||++|+++||++||||+|+||+|||||||||+|+++ .+|.++|++|++||++
T Consensus 297 iLGAeKalfr~Lkt~~~tPk~G~Iy~s~~V~~ap~~~rgKiaR~LAaK~aLAARiD~~~g~---~~G~~lreeie~ri~k 373 (388)
T 3pla_A 297 VLGAEKALFRALRSGGRPPKHGIIFQYPAIHTSPRWQRGKIARALAAKLAIAARVDAFSGR---FIGDQLNEQLKKRIDE 373 (388)
T ss_dssp TSSCHHHHHHHHHHTCCCCSCSGGGGSHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHTCCC---CCHHHHHHHHHHHHHH
T ss_pred HhhhhhHHHHHhccCCCCCCeeEEecCHhhhhCCHHHhHHHHHHHHHHHHHHHhhcccCCc---ccCHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999853 5799999999999999
Q ss_pred hhcCC
Q 008852 396 LEGKE 400 (551)
Q Consensus 396 l~~~~ 400 (551)
|+++.
T Consensus 374 l~e~~ 378 (388)
T 3pla_A 374 IKEKF 378 (388)
T ss_dssp HHCC-
T ss_pred HhCcc
Confidence 99864
No 2
>2nnw_A NOP5/NOP56 related protein; box C/D; 2.70A {Pyrococcus furiosus} PDB: 3nvi_A 3nmu_A 3nvk_A* 3nvm_A
Probab=100.00 E-value=2e-106 Score=841.86 Aligned_cols=358 Identities=34% Similarity=0.522 Sum_probs=325.5
Q ss_pred EEeeeccceeeEEEecCcCcccchhhHHHHhcCHHHhhccEEeeeeecCCCHHHHHHHHHHhhhcCCCHHHHHHHHhcCC
Q 008852 2 LVLFETPAGFALFKVLDEGKLSKVEGLWQEFNSAESARQIVKLKAFSKFENTSEALKAATCLLESKPSKDLRKFLRTHCD 81 (551)
Q Consensus 2 ~vLfEt~~GyaLFkv~~~~~~~~~~~~~~~~~~~~~~~~~vkL~~f~~F~~~~~Al~~~~~i~eg~~~~~L~~fL~~~~~ 81 (551)
..|+||+.|| |.+.+.+ ++.+|.||+++.+|++++ +++|++++.|++||+++..
T Consensus 13 ~~l~~~~~G~--~~~~e~g----------------------~~~~~~~f~~~~~al~~~--~~eg~~~~~l~~~l~~~~~ 66 (376)
T 2nnw_A 13 AFISENVRGI--YAFDENG----------------------NLIEKRYFTDKPEKVLDQ--LLKGEITKDLEELLNSLKE 66 (376)
T ss_dssp -CEEECSSEE--EEBCSSS----------------------CBCCCEECSSCHHHHHHH--HTTTCCCHHHHHHHHHHHT
T ss_pred HHHHhcccee--EEEcCCC----------------------ceEeeeeCCChHHHHHHH--HHcCCCCHHHHHHHHhccc
Confidence 3689999999 5555543 356899999999999976 5899999999999987542
Q ss_pred --CCeEEEeccchhHHHHhhhCCccc--cchHHHHHHHHHHHhHHHHhcCCCCCChhhhhhhhhhhhhhhhhccccchhh
Q 008852 82 --GETLAVADSKLGNAIKDKLKIECV--HNNAVMELMRGVRSQLTELISGLAGQDLQPMSLGLSHSLSRYKLKFSADKVD 157 (551)
Q Consensus 82 --~~~L~V~D~kL~~~I~~~l~i~~~--~~~~v~el~RgIR~~~~~ll~~l~~~d~~~~~lgLshslsr~Klk~s~~k~D 157 (551)
.++|+|+|++||.+|++ +|++|. ++..|++++ |.|+++|+ +.|+..|++||+|+++|+||+|+++++|
T Consensus 67 ~~~~~l~v~d~~l~~~i~~-~~~~~~~~~~~~~~~~~---R~~~~~l~----~~d~~~~~~~l~h~~sr~Kvk~~~~k~D 138 (376)
T 2nnw_A 67 KGYDEFVFEHPELSRRAKE-LGFSATTEFPNIAGERL---RSNPEEFL----GENWFEEYYKVGVALTRMRIQEQSGARD 138 (376)
T ss_dssp TTCCCEEESSHHHHHHHHT-TTCCEEECTTCHHHHHH---HHCTHHHH----CSSHHHHHHHHHHHHHHHHSCCCCSCHH
T ss_pred ccCeEEEEcCHHHHHHHHh-cCCceeeecCcHHHHHH---HHHHHHhh----hhHHHHHHHHHHHHHHHhhhccCCCcch
Confidence 37899999999999999 899985 778887776 99999999 7899999999999999999999999999
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHhccCccchhhccCcHHHHHHHHHhcCCCCCCccccccc-CcHHHHHHHHHHH
Q 008852 158 TMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEAA 236 (551)
Q Consensus 158 ~~IVqai~llddLDkeIn~~~~rvREwY~~hFPEL~~Iv~d~~~YakvV~~ig~r~n~~~~dL~~i-L~~e~~~~v~~aA 236 (551)
+||||||+++|+||+|||+||||||||||||||||++||+||.+|+++|+.||++.+++..+|+++ ||+++++.|.++|
T Consensus 139 ~~Iiqai~llddlDkeIn~~~~rlrewY~~~FPEL~~lV~d~~~Y~k~V~~ig~~~~l~~~~L~~i~l~~~~~~~I~~aA 218 (376)
T 2nnw_A 139 KMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKHPQYVAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAK 218 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCTTHHHHCCSHHHHHHHHHHTCSGGGCCSHHHHHTTCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCccHHhhcCCHHHHHHHHHHhCCccccCHhhHHHcCCCHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999998899999 9999999999999
Q ss_pred hhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCchhhhhchHHHHHHHHhhCCcchhccCCchhhhh
Q 008852 237 MISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQI 316 (551)
Q Consensus 237 ~~SmG~~lse~Dl~~I~~~~~~vi~L~e~R~~L~~YL~srM~~IAPNLtaLVG~~vaArLIs~AGsL~~LAK~PAStIQi 316 (551)
.+|||++||++|+.+|..+|+++++|+++|++|.+||++||..||||||+|||+.||||||+|||||.+|||||||||||
T Consensus 219 ~~S~G~~ls~~dl~~i~~~~~~v~~L~~~R~~l~~yl~~rM~~iAPNLsaLvG~~vaArLIs~AGgL~~LAK~PAstIQi 298 (376)
T 2nnw_A 219 EKTMGAWMDQTDIEVVRQLAEEIDRLYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQV 298 (376)
T ss_dssp HHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHCHHHHHHHHHHHTSHHHHHHSCHHHHHT
T ss_pred HhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHhChHHHHHHHHHhCCHHHHhhCChHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hchhhhhhhhhhccCCCCceEEEeeccccccCCcccccchhHhhhhhhHHHHhhhccCCCCCChh-hHHHHHHHHHHHHH
Q 008852 317 LGAEKALFRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSM-GLENRAKLEARLRN 395 (551)
Q Consensus 317 LGAEKALFraLkt~~~tPKyGlIy~s~lV~~ap~k~kgKiaR~LAaK~aLAARvDa~~~~~d~~~-G~~~re~Ie~rl~~ 395 (551)
|||||||||||+|+++|||||+||||++||++||++||||+|+||+|||||||||+|+ |.+ |.++|++|++||++
T Consensus 299 LGAeKalf~~lkt~~~tPk~G~Iy~s~~V~~ap~~~kgKiaR~LAaK~aLAARiD~~~----g~~~G~~lre~ie~rl~~ 374 (376)
T 2nnw_A 299 LGAEKALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS----GEYIAEELKKELEARIRE 374 (376)
T ss_dssp TTCC-------------CCCCGGGGSHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHT----CCCCHHHHHHHHHHHHHH
T ss_pred hccchhhHHHhccCCCCCCceEEeCCHhhccCCHHHHHHHHHHHHHHHHHHHHHhhcC----CcccCHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999995 355 99999999999998
Q ss_pred hh
Q 008852 396 LE 397 (551)
Q Consensus 396 l~ 397 (551)
|.
T Consensus 375 ik 376 (376)
T 2nnw_A 375 IK 376 (376)
T ss_dssp HC
T ss_pred hC
Confidence 73
No 3
>3icx_A PRE mRNA splicing protein; C/D guide RNA, 2'-O-methylation, coiled-coil, RNA binding PR; 3.10A {Sulfolobus solfataricus}
Probab=100.00 E-value=7.6e-91 Score=692.86 Aligned_cols=243 Identities=41% Similarity=0.644 Sum_probs=219.4
Q ss_pred hhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHhccCccchhhccCcHHHHHHHHHhcCCCCCCccccccc-CcHHHHHHHH
Q 008852 155 KVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLK 233 (551)
Q Consensus 155 k~D~~IVqai~llddLDkeIn~~~~rvREwY~~hFPEL~~Iv~d~~~YakvV~~ig~r~n~~~~dL~~i-L~~e~~~~v~ 233 (551)
|+|+||||||+++|+||+|||+||||||||||||||||++||+||++|+++|+.||||.|++..+|+++ +|+++++.|.
T Consensus 2 k~D~~Iiqai~lld~iDkein~~~~rvrewY~~~FPEL~~iv~d~~~Yak~V~~ig~~~~~~~~~l~~l~l~~~~~~~i~ 81 (255)
T 3icx_A 2 KRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGFLTIDSLKELGFNEQRINRIL 81 (255)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCTTHHHHCCCHHHHHHHHHHTCSGGGCCHHHHHTTTCCHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCcchHhhcCCHHHHHHHHHHHcCCCCCChhhHHHccCCHHHHHHHH
Confidence 689999999999999999999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred HHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCchhhhhchHHHHHHHHhhCCcchhccCCchh
Q 008852 234 EAAMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGST 313 (551)
Q Consensus 234 ~aA~~SmG~~lse~Dl~~I~~~~~~vi~L~e~R~~L~~YL~srM~~IAPNLtaLVG~~vaArLIs~AGsL~~LAK~PASt 313 (551)
++|++|||++||++|+.+|..+|+++++|+++|++|.+||++||..||||||+|||+.||||||+|||||.+||||||||
T Consensus 82 ~aa~~S~G~~ls~~dl~~i~~~~~~v~~L~~~r~~l~~yl~srM~~iAPNLsaLvG~~vaArLIs~AGgL~~LAk~PAst 161 (255)
T 3icx_A 82 DAAKKSIGADISEDDLSAMRMIANTILDLYNIRRNLNNYLEGVMKEVAPNVTALVGPALGARLLSIAGSLDELAKMPAST 161 (255)
T ss_dssp HHHHTCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHCHHHHHHHHHHHSSHHHHTTSCHHH
T ss_pred HHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcHHHHhccHHHHHHHHHcCCHHHHhhCChHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhchhhhhhhhhhccCCCCceEEEeeccccccCCcccccchhHhhhhhhHHHHhhhccCCCCCChhhHHHHHHHHHHH
Q 008852 314 VQILGAEKALFRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSMGLENRAKLEARL 393 (551)
Q Consensus 314 IQiLGAEKALFraLkt~~~tPKyGlIy~s~lV~~ap~k~kgKiaR~LAaK~aLAARvDa~~~~~d~~~G~~~re~Ie~rl 393 (551)
||||||||||||||+|+++||||||||||++||++||++||||+|+||+||+||||||+|++ ..+|.++|++|++||
T Consensus 162 IqiLGAeKalfr~lkt~~~tPk~G~Iy~s~~V~~ap~~~rgkiaR~LAaK~aLAARiD~~~g---~~~G~~lre~ie~ri 238 (255)
T 3icx_A 162 IQVLGAEKALFRALRSGGRPPKHGIIFQYPAIHTSPRWQRGKIARALAAKLAIAARVDAFSG---RFIGDQLNEQLKKRI 238 (255)
T ss_dssp HTTCC-------------------GGGGSHHHHTSCGGGHHHHHHHHHHHHHHHHHHHHTTC---CCCHHHHHHHHHHHH
T ss_pred HHHhhhhhHHHHHhccCCCCCCeeEEecCHhhhcCCHHHHHHHHHHHHHHHHHHHhhcccCC---cccCHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999985 357999999999999
Q ss_pred HHhhcCC
Q 008852 394 RNLEGKE 400 (551)
Q Consensus 394 ~~l~~~~ 400 (551)
++|+++.
T Consensus 239 ~kl~e~~ 245 (255)
T 3icx_A 239 DEIKEKF 245 (255)
T ss_dssp HHHHTTC
T ss_pred HHHhCcc
Confidence 9999864
No 4
>2ozb_B U4/U6 small nuclear ribonucleoprotein PRP31; RNA-protein complex, ribonucleoprotein particle (RNP), PRE-M splicing, U4/U6 DI-snRNA, U4/U6 DI-snRNP; 2.60A {Homo sapiens} SCOP: a.183.1.1 PDB: 3siu_B 3siv_B
Probab=100.00 E-value=3.5e-88 Score=676.59 Aligned_cols=245 Identities=27% Similarity=0.513 Sum_probs=228.7
Q ss_pred chhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHhccCccchhhccCcHHHHHHHHHhcCCCCCC--cccccccCcHHHHHH
Q 008852 154 DKVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKLMGDRSNAA--KLDFSEILPEEVEAQ 231 (551)
Q Consensus 154 ~k~D~~IVqai~llddLDkeIn~~~~rvREwY~~hFPEL~~Iv~d~~~YakvV~~ig~r~n~~--~~dL~~iL~~e~~~~ 231 (551)
+..+.||||||+++|+||+|||+||||||||||||||||++||+||.+|+++|+.|||+.++. ..+|+++|++++++.
T Consensus 14 ~~eY~~Ivqa~~lld~idkein~~~~rlre~Y~~~FPEL~~lv~~~~~Y~~~V~~ig~~~~~~~~~~~L~~iL~~~~~~~ 93 (260)
T 2ozb_B 14 APEYRVIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELGNSLDKCKNNENLQQILTNATIMV 93 (260)
T ss_dssp SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCTTHHHHCCSHHHHHHHHHHHTTCGGGCTTCTTGGGTSCHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCccHHHHhcCHHHHHHHHHHhCCchhhccchHHHHHHcCHHHHHH
Confidence 345568999999999999999999999999999999999999999999999999999998875 456999999999999
Q ss_pred HHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCchhhhhchHHHHHHHHhhCCcchhccCCc
Q 008852 232 LKEAAMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPG 311 (551)
Q Consensus 232 v~~aA~~SmG~~lse~Dl~~I~~~~~~vi~L~e~R~~L~~YL~srM~~IAPNLtaLVG~~vaArLIs~AGsL~~LAK~PA 311 (551)
|.++|++|||++||++|+.+|..+|+++++|+++|++|.+||++||..||||||+|||+.||||||+|||||.+||||||
T Consensus 94 i~~aA~~S~G~~ls~~dl~~i~~~~~~v~~L~~~r~~l~~yl~~rM~~iAPNLtaLvG~~vaArLI~~AGsL~~Lak~Pa 173 (260)
T 2ozb_B 94 VSVTASTTQGQQLSEEELERLEEACDMALELNASKHRIYEYVESRMSFIAPNLSIIIGASTAAKIMGVAGGLTNLSKMPA 173 (260)
T ss_dssp HHHHHHSCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHTSHHHHHTSCH
T ss_pred HHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHhCcHHHHHHHHHhCCHHHHhhCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhchhhhhhhhhhccCCCCceEEEeeccccccCCcccccchhHhhhhhhHHHHhhhccCCCCCChhhHHHHHHHHH
Q 008852 312 STVQILGAEKALFRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSMGLENRAKLEA 391 (551)
Q Consensus 312 StIQiLGAEKALFraLkt~~~tPKyGlIy~s~lV~~ap~k~kgKiaR~LAaK~aLAARvDa~~~~~d~~~G~~~re~Ie~ 391 (551)
|||||||||||+|+||+|+++||||||||||++||++||++||||+|+||+||+||||||+|++++++.+|.++|++|++
T Consensus 174 stiqiLGaeKalf~~l~t~~~~pk~G~Iy~~~~V~~~p~~~rgk~~R~lA~K~alAaRiD~~~~~~~~~~G~~lr~~ie~ 253 (260)
T 2ozb_B 174 CNIMLLGAQRKTLSGFSSTSVLPHTGYIYHSDIVQSLPPDLRRKAARLVAAKCTLAARVDSFHESTEGKVGYELKDEIER 253 (260)
T ss_dssp HHHTTTTCC----------CCCTTCCTTTTSHHHHTSCGGGHHHHHHHHHHHHHHHHHHHHTTCSTTSHHHHHHHHHHHH
T ss_pred HHHHHhcccHHHHHhhccCCCCCCeeeEeCCHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccccHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhc
Q 008852 392 RLRNLEG 398 (551)
Q Consensus 392 rl~~l~~ 398 (551)
||++|++
T Consensus 254 rl~~~~e 260 (260)
T 2ozb_B 254 KFDKWQE 260 (260)
T ss_dssp HHHHHCC
T ss_pred HHHHhcC
Confidence 9999975
No 5
>3id6_A NOP5, PRE mRNA splicing protein; C/D guide RNA, 2'-O-methylation, coiled-coil, methyltransfer binding, rRNA processing; HET: SAM; 2.60A {Sulfolobus solfataricus}
Probab=100.00 E-value=1.1e-69 Score=544.87 Aligned_cols=254 Identities=26% Similarity=0.377 Sum_probs=237.8
Q ss_pred EEeeeccceeeEEEecCcCcccchhhHHHHhcCHHHhhccEEeeeeecCC-CHHHHHHHHHHhhhcCCCHHHHHHHHhcC
Q 008852 2 LVLFETPAGFALFKVLDEGKLSKVEGLWQEFNSAESARQIVKLKAFSKFE-NTSEALKAATCLLESKPSKDLRKFLRTHC 80 (551)
Q Consensus 2 ~vLfEt~~GyaLFkv~~~~~~~~~~~~~~~~~~~~~~~~~vkL~~f~~F~-~~~~Al~~~~~i~eg~~~~~L~~fL~~~~ 80 (551)
..|+|++.||..| |++ -+|++|.||+ |+++||+++++|++|++++.|++||+.++
T Consensus 4 ~yl~~~~~G~~a~---de~---------------------g~lv~f~pF~~s~~~ale~~~~i~eG~~~~~L~~fL~~~~ 59 (268)
T 3id6_A 4 IYLIEHVIGAVAY---DEN---------------------GNIVDYITNPRDLGKITEELLNNEKGIPFSATVELLKKVN 59 (268)
T ss_dssp EEEEEETTEEEEE---CTT---------------------SCEEEEEECCSCHHHHHHHHHHHHHTCCCHHHHHHHHHSC
T ss_pred EEEEecceeeEEE---CCC---------------------CCeeeecCCCCCHHHHHHHHHHHhcCCCCHHHHHHHHHhC
Confidence 5799999999999 331 3899999999 99999999999999999999999999998
Q ss_pred CCCeEEEeccchhHHHHhhhCCccccchHHHHHHHHHHHhHHHHhc--CCC--CCChhhhhhhhhhhhhhhhhccccchh
Q 008852 81 DGETLAVADSKLGNAIKDKLKIECVHNNAVMELMRGVRSQLTELIS--GLA--GQDLQPMSLGLSHSLSRYKLKFSADKV 156 (551)
Q Consensus 81 ~~~~L~V~D~kL~~~I~~~l~i~~~~~~~v~el~RgIR~~~~~ll~--~l~--~~d~~~~~lgLshslsr~Klk~s~~k~ 156 (551)
+ .+|+|+|++||++|++. ||+|.+ ..+.+++|+||.|+.+++. |+. ++|+.+|++||+|++||+||||+|+++
T Consensus 60 ~-~~l~V~D~kL~~~i~~~-gi~~~~-~~~~~~~~~iR~~~~~l~~~~G~~~~~~d~~~~~lgl~hs~sR~Klk~~~~k~ 136 (268)
T 3id6_A 60 P-QEVVVENEAEVPKLQAL-GYRVSY-EPYSKVSRIFRESLPKVAIDIKFASNEEDYYNFLHELSLEYTRRKLRSAAQKR 136 (268)
T ss_dssp C-SEEEESCTTHHHHHTTT-TCEEEE-CTTCHHHHHHHHTTTHHHHHTTSCSSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred C-CeEEEeChHHHHHHHhc-CCCccc-CCcHHHHHHHHHhHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence 8 78999999999999986 999994 3456889999999999996 667 778999999999999999999999999
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHHHhccCccchhhccCcHHHHHHHHHhcCCCCCCccccccc-CcHHHHHHHHHH
Q 008852 157 DTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEA 235 (551)
Q Consensus 157 D~~IVqai~llddLDkeIn~~~~rvREwY~~hFPEL~~Iv~d~~~YakvV~~ig~r~n~~~~dL~~i-L~~e~~~~v~~a 235 (551)
|+||||||++||+||++||+|+||||||||||||||++||+||.+||++|+.||+|.|++..+|++| ||+++++.|.+|
T Consensus 137 D~mIIQai~llDdlDkeiN~~~mRvREWY~~hFPEL~kiV~d~~~Yak~V~~ig~r~~l~~~~l~~i~l~~~~~~~I~~a 216 (268)
T 3id6_A 137 DLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGFLTIDSLKELGFNEQRINRILDA 216 (268)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCTTHHHHCCCHHHHHHHHHHHCSTTSCCHHHHGGGTCCHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCccHHHhccCHHHHHHHHHHhCCcccCCcccHhhcCCCHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999 999999999999
Q ss_pred HhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC
Q 008852 236 AMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSRMNTVAP 282 (551)
Q Consensus 236 A~~SmG~~lse~Dl~~I~~~~~~vi~L~e~R~~L~~YL~srM~~IAP 282 (551)
|++|||++||++||.+|..+|++|++|++||++|.+||++||..+|-
T Consensus 217 A~~SmG~~ise~DL~~I~~~a~~v~~L~e~R~~L~~Yl~srM~~~~~ 263 (268)
T 3id6_A 217 AKKSIGADISEDDLSAMRMIANTILDLYNIRRNLNNYLEGVMKEVAH 263 (268)
T ss_dssp HHSCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----
T ss_pred HHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999874
No 6
>1nt2_B Conserved hypothetical protein; adeMet, binding motif, RNA binding protein; HET: SAM; 2.90A {Archaeoglobus fulgidus} SCOP: a.183.1.1
Probab=100.00 E-value=4e-71 Score=550.95 Aligned_cols=207 Identities=25% Similarity=0.426 Sum_probs=182.4
Q ss_pred CCCChhhhhhhhhhhhhhhhhccccchhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHhccCccchhhccCcHHHHHHHHH
Q 008852 129 AGQDLQPMSLGLSHSLSRYKLKFSADKVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKL 208 (551)
Q Consensus 129 ~~~d~~~~~lgLshslsr~Klk~s~~k~D~~IVqai~llddLDkeIn~~~~rvREwY~~hFPEL~~Iv~d~~~YakvV~~ 208 (551)
+..|+....++++|++||+||+|++++.|+||||+|+++|+||++||.||||||||||| |
T Consensus 46 ~~~~y~~~l~~~~~~~sr~kvk~~~~~~D~~Iiqai~lld~idkein~~~~rvrewY~~--~------------------ 105 (258)
T 1nt2_B 46 LGKDYYRILRKTALAVSEKMVEKELRREDRYVVALVKALEEIDESINMLNEKLEDIRAV--K------------------ 105 (258)
T ss_dssp SCSTHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHTTTTHHHHHTT--C------------------
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--C------------------
Confidence 35789999999999999999999999999999999999999999999999999999998 0
Q ss_pred hcCCCCCCcccccccCcHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCchhhhh
Q 008852 209 MGDRSNAAKLDFSEILPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSRMNTVAPNLTALV 288 (551)
Q Consensus 209 ig~r~n~~~~dL~~iL~~e~~~~v~~aA~~SmG~~lse~Dl~~I~~~~~~vi~L~e~R~~L~~YL~srM~~IAPNLtaLV 288 (551)
+| +||+ .+|+++++|+++|++|.+||++||..||||||+||
T Consensus 106 -----------------------------~S---~ise-------~~~~~v~~L~~~r~~l~~yl~srM~~iAPNLsaLv 146 (258)
T 1nt2_B 106 -----------------------------ES---EITE-------KFEKKIRELRELRRDVEREIEEVMEKIAPNMTELV 146 (258)
T ss_dssp -----------------------------CC---TTHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHH
T ss_pred -----------------------------CC---cCCH-------HHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHh
Confidence 12 4443 89999999999999999999999999999999999
Q ss_pred chHHHHHHHHhhCCcchhccCCchhhhhhchhhhhhhhh---hcc--CCCCceEEEeeccccccCCcccccchhHhhhhh
Q 008852 289 GELVGARLIAHGGSLLNLAKQPGSTVQILGAEKALFRAL---KTK--HATPKYGLIYHASLVGQAAPKHKGKISRSLASK 363 (551)
Q Consensus 289 G~~vaArLIs~AGsL~~LAK~PAStIQiLGAEKALFraL---kt~--~~tPKyGlIy~s~lV~~ap~k~kgKiaR~LAaK 363 (551)
|+.||||||+|||||.+||||||||||||||||+||+|| +|+ ++||||||||||++||++||++||||+|+||+|
T Consensus 147 G~~vaArLI~~AGgL~~LAk~PAstIqiLGAeKalf~~l~~~~t~~~~~~pk~G~Iy~s~~V~~ap~~~rgK~aR~LAaK 226 (258)
T 1nt2_B 147 GAKVAAKLLERAGSMERLVRLPASKIQVIGAEKSLYKAFARMKKGKKAKIPKHGIIFLHPFIRTLPKAKRGKMARFLAAK 226 (258)
T ss_dssp CHHHHHHHHHHHCSHHHHHTCCHHHHTTSSCC--------------------CCGGGGSHHHHTSCSSSSHHHHHHHHHH
T ss_pred CcHHHHHHHHHhCCHHHHhhCCHHHHHHhccchHHHhhhhccccccCCCCCCcceEecCHHHhcCCHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999 998 999999999999999999999999999999999
Q ss_pred hHHHHhhhccCCCCCChhhHHHHHHHHHHHHHhhc
Q 008852 364 TALAIRYDALGDGQDNSMGLENRAKLEARLRNLEG 398 (551)
Q Consensus 364 ~aLAARvDa~~~~~d~~~G~~~re~Ie~rl~~l~~ 398 (551)
|+||||||+|+ |.+|.++|++|++||++|++
T Consensus 227 ~aLAARiD~~~----g~~G~~lre~ie~rl~k~~e 257 (258)
T 1nt2_B 227 LAIAAKIDYFR----GEIDESLYESIRRRYEELRR 257 (258)
T ss_dssp HHHHHHHHHHT----CSCCTHHHHHHHHHHHHCC-
T ss_pred HHHHHHHHhhC----CcccHHHHHHHHHHHHHHhh
Confidence 99999999996 57899999999999999976
No 7
>3gqu_A NOP5P protein; RNA binding domain, RNA binding protein; 2.50A {Pyrococcus horikoshii} PDB: 3gqx_B
Probab=100.00 E-value=6.2e-51 Score=382.44 Aligned_cols=135 Identities=44% Similarity=0.630 Sum_probs=111.5
Q ss_pred HHHHHHHHHHHHhcccccCCchhhhhchHHHHHHHHhhCCcchhccCCchhhhhhchhhhhhhhhhccCCCCceEEEeec
Q 008852 263 AEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKYGLIYHA 342 (551)
Q Consensus 263 ~e~R~~L~~YL~srM~~IAPNLtaLVG~~vaArLIs~AGsL~~LAK~PAStIQiLGAEKALFraLkt~~~tPKyGlIy~s 342 (551)
...|.+|.+||++||..||||||+|||+.||||||+|||||.+||+|||||||+|||||+||+||+|+++||||||||||
T Consensus 16 ~~~~~~L~~Yl~srM~~iAPNLsaLvG~~vaArLI~~AGgL~~LAK~PAsnIqvLGAeKalf~~l~t~~~~pk~G~Iy~s 95 (169)
T 3gqu_A 16 VIGAGGLEDYIDKAMDDVAPNLKALVGAKLGARLISLAGGLKELAMLPSSTIQVLGAEKALFRHLRTGAKPPKHGVIYQY 95 (169)
T ss_dssp ----CCHHHHHHHHHHHHCHHHHHHHCHHHHHHHHHHHTSHHHHHTCCSHHHHTSCC----------------CCGGGGS
T ss_pred HHHHHHHHHHHHHHHHHhCCcHHHHhChHHHHHHHHHhCCHHHHhhCCHHHHHHHhhhhHHHHHHhcCCCCCCCCEEEeC
Confidence 34689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCcccccchhHhhhhhhHHHHhhhccCCCCCChhhHHHHHHHHHHHHHhhcCC
Q 008852 343 SLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSMGLENRAKLEARLRNLEGKE 400 (551)
Q Consensus 343 ~lV~~ap~k~kgKiaR~LAaK~aLAARvDa~~~~~d~~~G~~~re~Ie~rl~~l~~~~ 400 (551)
++|+++|+++||||+|+||+||+||||||+|++ ..+|..+|++|++||++|.+.-
T Consensus 96 ~lV~~~p~~~rgK~aR~LAaK~aLAARiD~~~g---~~~G~~lreeie~riekl~e~~ 150 (169)
T 3gqu_A 96 PAINRSPWWQRGKIARALAGKLAIAARVDYFSG---EYIAEELKKELEARIKEIKEKY 150 (169)
T ss_dssp HHHHTSCTTTHHHHHHHHHHHHHHHHHHHHHTC---CCCCTTHHHHHHHHHHHCCCSC
T ss_pred HhhhcCCHHHHHHHHHHHHHHHHHHHhhcccCC---cccCHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999985 3579999999999999999753
No 8
>3swh_A MUNC13-1, protein UNC-13 homolog A; alpha helical, neurotransmitter release, snare motif, exocyt; 2.65A {Rattus norvegicus}
Probab=53.90 E-value=55 Score=33.71 Aligned_cols=185 Identities=16% Similarity=0.098 Sum_probs=91.0
Q ss_pred cccchHHHHHHHHHHHhHHHHhcCCCCCChhhhhhhhhhhhhhhhhccccchhhHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 008852 104 CVHNNAVMELMRGVRSQLTELISGLAGQDLQPMSLGLSHSLSRYKLKFSADKVDTMIIQAIGLLDDLDKELNTYAMRVRE 183 (551)
Q Consensus 104 ~~~~~~v~el~RgIR~~~~~ll~~l~~~d~~~~~lgLshslsr~Klk~s~~k~D~~IVqai~llddLDkeIn~~~~rvRE 183 (551)
..++.+|.++++++. |.-.++..|...|.... + +| + ..+++.|-+-+..|+..|+.
T Consensus 49 ~~hSsSvvDif~~~~-Q~~~~~~~L~WpD~~~~----~----~f------------~---t~l~~~i~~~~~~Y~~~l~~ 104 (341)
T 3swh_A 49 ALFSCSVVDVFSQLN-QSFEIIKKLECPDPQIV----G----HY------------M---RRFAKTISNVLLQYADIVSK 104 (341)
T ss_dssp CCSCTHHHHHHHHHH-HHHHHHHHSCCSCHHHH----H----HH------------H---HHHHHHHHHHHHHHHHHHHH
T ss_pred ccccchHHHHHHHHH-HHHHHHHHCCCCCHHHH----H----HH------------H---HHHHHHHHHHHHHHHHHHHH
Confidence 357999999999997 45556666766554321 1 11 1 13556666777777777765
Q ss_pred HHhccCccc----hhhccCcHHHHHHHHH-hcCCCCCCcc--cccccCcH--HHHHHHHHHHhhccCCCCCHHHHHHHHH
Q 008852 184 WYGWHFPEL----AKIIQDNILYAKAVKL-MGDRSNAAKL--DFSEILPE--EVEAQLKEAAMISMGTEVSDLDLLNIKE 254 (551)
Q Consensus 184 wY~~hFPEL----~~Iv~d~~~YakvV~~-ig~r~n~~~~--dL~~iL~~--e~~~~v~~aA~~SmG~~lse~Dl~~I~~ 254 (551)
-+.-+...- -=++-||++|+|+... +......... ++++++.+ .....+..-+..+.|..+-+.=-..|.+
T Consensus 105 ~~~~~~~~e~~~~~Cv~lNNie~lR~~L~~l~~~l~~~~l~~~~~~~~~~lq~~l~~vl~~l~~~~~~~~~~~i~~~v~~ 184 (341)
T 3swh_A 105 DFASYCSKEKEKVPCILMNNTQQLRVQLEKMFEAMGGKELDAEASGTLKELQVKLNNVLDELSHVFATSFQPHIEECVRQ 184 (341)
T ss_dssp HHHHHCCTTSCHHHHHHHHHHHHHHHHHHHHHHHTTTTTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHH
T ss_pred HHHhhhhhhcccchhhhcccHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 543322211 1245599999998653 3222111111 12222211 1112222222233333332222223344
Q ss_pred HHHH------------------HHHHHHHHHHHHHHHHhcccccCCchhhhhchHHHHHHHHhh-CCcchhccCCch
Q 008852 255 LCDQ------------------VLSLAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHG-GSLLNLAKQPGS 312 (551)
Q Consensus 255 ~~~~------------------vi~L~e~R~~L~~YL~srM~~IAPNLtaLVG~~vaArLIs~A-GsL~~LAK~PAS 312 (551)
++.. -.+.++.-.-|.+||+..+..++-+|..=+-..|--.|-.+. .+|..+.-+|..
T Consensus 185 m~~~l~~i~~~~~~~~~~~~~~~~~~~~ai~PLm~yLd~~L~~l~~~L~~~~f~rvL~~lW~~~l~~l~~~i~lP~~ 261 (341)
T 3swh_A 185 MGDILSQVKGTGNVPASACSSVAQDADNVLQPIMDLLDSNLTLFAKICEKTVLKRVLKELWKLVMNTMERTIVLPPE 261 (341)
T ss_dssp HHHHHHTCC-----------CHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHTTSCGG
T ss_pred HHHHHHhhcccccCCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence 3320 133456666777888887777766555444443333333222 234444445554
No 9
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=43.98 E-value=15 Score=28.66 Aligned_cols=41 Identities=24% Similarity=0.325 Sum_probs=33.9
Q ss_pred hchHHHHHHHHhhCCcchhccCCchhh-hhhchhh-h--hhhhhh
Q 008852 288 VGELVGARLIAHGGSLLNLAKQPGSTV-QILGAEK-A--LFRALK 328 (551)
Q Consensus 288 VG~~vaArLIs~AGsL~~LAK~PAStI-QiLGAEK-A--LFraLk 328 (551)
||+.-..+|+.|-||+.++...+--.+ +++|.+. | ++..|.
T Consensus 12 IG~kr~~~LL~~Fgs~~~i~~As~eeL~~vig~~~~A~~I~~~l~ 56 (63)
T 2a1j_A 12 VNAKNCRSLMHHVKNIAELAALSQDELTSILGNAANAKQLYDFIH 56 (63)
T ss_dssp CCHHHHHHHHHHCSSHHHHHTCCHHHHHHHHSCHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHcCCHHHHHHCCHHHHHHHcCchHHHHHHHHHHh
Confidence 689999999999999999999998777 5688765 4 566665
No 10
>4fbj_A CIF, hypothetical protein; effector-HOST target complex, glutamine deamidase, deamidati bacterial effector, cell cycle-protein binding complex; 1.60A {Photorhabdus luminescens subsp} PDB: 3gqj_A
Probab=40.93 E-value=9.6 Score=37.51 Aligned_cols=72 Identities=19% Similarity=0.251 Sum_probs=44.5
Q ss_pred HHhhCCc------chhccCCchhhhhhchhh-hhhhh----hhccCCCCceEEEeeccccccCCcccccchhHhhhhhhH
Q 008852 297 IAHGGSL------LNLAKQPGSTVQILGAEK-ALFRA----LKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTA 365 (551)
Q Consensus 297 Is~AGsL------~~LAK~PAStIQiLGAEK-ALFra----Lkt~~~tPKyGlIy~s~lV~~ap~k~kgKiaR~LAaK~a 365 (551)
++.+|+| ..|+.||||.=-|+=..- +|-++ +-...+ +..||||||+|=+.+-|.+| ++--+..|.+
T Consensus 99 ~~Qt~~l~~~~faE~l~~L~s~kNyV~~VNDgrLGH~flIDiPa~~~-~r~ayiyQSDLG~Galp~lr--~eDWm~~rg~ 175 (261)
T 4fbj_A 99 MAQTGKIDGNEFAESVDQLSSAKNYVALVNDRRLGHMFLIDIPSNDQ-ETVGYIYQSDLGQGALPPLK--IADWLNSRGK 175 (261)
T ss_dssp HHHHSCBCHHHHHHHGGGSCTTCEEEEEEEETTTTEEEEEEECCCSS-CCEEEEECCBCSCSSSCCBC--HHHHHHHGGG
T ss_pred hhhhcccchHHHHHHHhhhhcccCEEEEEcCCCcceeEEEecCCCCC-CcceEEEecccCCCCCccee--HHHHHhhcCC
Confidence 4667888 678899999755543322 12121 122233 88999999999999988764 4445544444
Q ss_pred HHHhhh
Q 008852 366 LAIRYD 371 (551)
Q Consensus 366 LAARvD 371 (551)
=+.-+|
T Consensus 176 ~pIsLd 181 (261)
T 4fbj_A 176 DAVSLN 181 (261)
T ss_dssp SEEEHH
T ss_pred CCccHH
Confidence 333333
No 11
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5
Probab=32.52 E-value=30 Score=26.62 Aligned_cols=35 Identities=23% Similarity=0.349 Sum_probs=26.8
Q ss_pred hchHHHHHHHHhhCCcchhccCCchhhh-h--hchhhh
Q 008852 288 VGELVGARLIAHGGSLLNLAKQPGSTVQ-I--LGAEKA 322 (551)
Q Consensus 288 VG~~vaArLIs~AGsL~~LAK~PAStIQ-i--LGAEKA 322 (551)
||+.++.+|+.+-||+.+|...+...++ | +|..++
T Consensus 22 iG~~~a~~Ll~~fgs~~~l~~a~~~~L~~i~Gig~~~a 59 (75)
T 1x2i_A 22 VSATLARRLLKHFGSVERVFTASVAELMKVEGIGEKIA 59 (75)
T ss_dssp CCHHHHHHHHHHHCSHHHHHHCCHHHHTTSTTCCHHHH
T ss_pred CCHHHHHHHHHHcCCHHHHHhCCHHHHhcCCCCCHHHH
Confidence 6889999999999999998877666554 2 565554
No 12
>4ehp_B Catenin alpha-1; adherens junctions, vinculin binding site, vinculin binding helix bundle, cell adhesion; 2.66A {Homo sapiens}
Probab=29.37 E-value=59 Score=28.72 Aligned_cols=50 Identities=28% Similarity=0.349 Sum_probs=37.0
Q ss_pred CcHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Q 008852 224 LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSRMNT 279 (551)
Q Consensus 224 L~~e~~~~v~~aA~~SmG~~lse~Dl~~I~~~~~~vi~L~e~R~~L~~YL~srM~~ 279 (551)
|++.+...|.-|+..+--..-+++..+.|...|+.| |+.|.+-|..-|..
T Consensus 34 Lee~LE~Iisgaa~~aDS~~Tr~e~RerIv~eCnav------RqaLQdLlseym~~ 83 (111)
T 4ehp_B 34 LEERLESIISGAALMADSSCTRDDRRERIVAECNAV------RQALQDLLSEYMGN 83 (111)
T ss_dssp HHHHHHHHHHHHTCSCCCCSGGGHHHHHHHHHHHHH------HHHHHHHHHHHHGG
T ss_pred HHHHHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence 445566667777777777777888999999999987 66666666665554
No 13
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=29.20 E-value=44 Score=27.31 Aligned_cols=35 Identities=29% Similarity=0.328 Sum_probs=28.1
Q ss_pred hchHHHHHHHHhhCCcchhccCCchhhh-h--hchhhh
Q 008852 288 VGELVGARLIAHGGSLLNLAKQPGSTVQ-I--LGAEKA 322 (551)
Q Consensus 288 VG~~vaArLIs~AGsL~~LAK~PAStIQ-i--LGAEKA 322 (551)
||+..+.+|+.+-|++.+|...+...++ | +|..++
T Consensus 40 IG~~~A~~Ll~~fgs~~~l~~as~~eL~~i~GIG~~~a 77 (91)
T 2a1j_B 40 VNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKA 77 (91)
T ss_dssp CCHHHHHHHHHHHSSHHHHHSCCHHHHHTSSSCCSHHH
T ss_pred CCHHHHHHHHHHCCCHHHHHhCCHHHHHhCCCCCHHHH
Confidence 6899999999999999999888776664 3 566554
No 14
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation; 2.00A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.96.1.2
Probab=28.92 E-value=3.3e+02 Score=25.69 Aligned_cols=21 Identities=5% Similarity=0.158 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHhccC
Q 008852 169 DLDKELNTYAMRVREWYGWHF 189 (551)
Q Consensus 169 dLDkeIn~~~~rvREwY~~hF 189 (551)
-++.++..|..++.+||..+.
T Consensus 4 ~~~~~~~~~~~~l~~~~~~~~ 24 (221)
T 1kea_A 4 ATNKKRKVFVSTILTFWNTDR 24 (221)
T ss_dssp THHHHHHHHHHHHHHHHHHSC
T ss_pred ccHHHHHHHHHHHHHHHHHhh
Confidence 356677889999999998764
No 15
>3efy_A CIF (cell cycle inhibiting factor); bacteria, virulence factor, type III secretion, E. coli, plasmid; 1.70A {Escherichia coli}
Probab=24.14 E-value=41 Score=31.79 Aligned_cols=58 Identities=16% Similarity=0.213 Sum_probs=34.2
Q ss_pred chhccCCchhhhhhchhh-hh----hhhhhccCCCCceEEEeeccccccCCcccccchhHhhhhh
Q 008852 304 LNLAKQPGSTVQILGAEK-AL----FRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASK 363 (551)
Q Consensus 304 ~~LAK~PAStIQiLGAEK-AL----FraLkt~~~tPKyGlIy~s~lV~~ap~k~kgKiaR~LAaK 363 (551)
..|+.||+|.=-|+=..- +| .--+-...+.+..||||||+|=+.+-|.+| ++--+..|
T Consensus 44 E~l~~l~s~knyV~~VNDgrLGH~fliDiP~~~n~~r~ayiyQSDLG~galp~lr--~eDWm~~r 106 (195)
T 3efy_A 44 ERLSCMPECKSFVLRVNDGALGHAYIVDIPKGENSCRPAFLYQSDLGEGVTRKLR--FEDWMTHK 106 (195)
T ss_dssp HHHHTCCTTSEEEEEEEETTTTEEEEEEECSCCSTTCEEEEECCBCSSSSSCCBC--HHHHHTTG
T ss_pred HHHhhhhcccCEEEEEcCCCcceeEEEecCCCCCCCcceEEEecccCCcccccee--HHHHHhhc
Confidence 345667777644432221 11 112234457889999999999999888664 34444333
No 16
>3a5i_A Flagellar biosynthesis protein FLHA; four domains, thioredoxin-like fold, bacterial flagellum BIO bacterial flagellum protein export; 2.80A {Salmonella typhimurium}
Probab=23.19 E-value=1.8e+02 Score=30.55 Aligned_cols=62 Identities=21% Similarity=0.119 Sum_probs=38.8
Q ss_pred CcHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHhcccccCCchhhh
Q 008852 224 LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLSLAEYR---------AQLYDYLKSRMNTVAPNLTAL 287 (551)
Q Consensus 224 L~~e~~~~v~~aA~~SmG~~lse~Dl~~I~~~~~~vi~L~e~R---------~~L~~YL~srM~~IAPNLtaL 287 (551)
|.++++..|..+...+.| |++...+.|..-....+.-.... -.+..||+.=+....|+|..|
T Consensus 299 L~p~lE~~l~~si~qt~G--L~P~~~~~l~~~l~~~~~~~~~~g~~pVLL~s~~iR~~lr~lle~~~p~l~VL 369 (389)
T 3a5i_A 299 LDTALERLLLQALQGGGG--LEPGLADRLLAQTQEALSRQEMLGAPPVLLVNHALRPLLSRFLRRSLPQLVVL 369 (389)
T ss_dssp CCTTHHHHHHHHHHSSSC--CCTTHHHHHHHHHHHHHHHHHHHTCCCEEEECTTTHHHHHHHHTTTCTTCEEE
T ss_pred eCHHHHHHHHHHhcccCC--CCHHHHHHHHHHHHHHHHHHHhcCCCeEEEeCHHHHHHHHHHHHHHCCCCEEE
Confidence 677888888888774447 88888877776665554422221 134555555555666666654
No 17
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=22.15 E-value=42 Score=27.22 Aligned_cols=42 Identities=31% Similarity=0.395 Sum_probs=31.8
Q ss_pred hchHHHHHHHHhhCCcchhccCCchhhh-h--hchhhh--hhhhhhc
Q 008852 288 VGELVGARLIAHGGSLLNLAKQPGSTVQ-I--LGAEKA--LFRALKT 329 (551)
Q Consensus 288 VG~~vaArLIs~AGsL~~LAK~PAStIQ-i--LGAEKA--LFraLkt 329 (551)
||+..+-+|+.+-|++.+|...+...++ | +|..++ +...|..
T Consensus 27 IG~~~A~~Ll~~fgsl~~l~~a~~~eL~~i~GIG~~~a~~I~~~l~~ 73 (89)
T 1z00_A 27 VNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVLHE 73 (89)
T ss_dssp CCHHHHHHHHHHTCBHHHHHHCCHHHHHTSTTCCHHHHHHHHHHHHS
T ss_pred CCHHHHHHHHHHCCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 6899999999999999999888877665 3 576665 3445543
Done!