Query 004498
Match_columns 748
No_of_seqs 248 out of 1108
Neff 4.8
Searched_HMMs 29240
Date Tue Mar 26 17:43:56 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/004498.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1807-1810//hhsearch_pdb/004498hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2bx2_L Ribonuclease E, RNAse E 1.0 1 1 1068.6 54.5 491 74-709 7-501 (517)
2 3cw2_C Translation initiation 1.0 1 1 88.9 1.7 131 109-397 8-144 (266)
3 1q8k_A Eukaryotic translation 1.0 1 1 75.4 5.4 195 289-549 58-266 (308)
4 2cqo_A Nucleolar protein of 40 1.0 1 1 51.4 6.9 38 108-147 18-56 (119)
5 2eqs_A ATP-dependent RNA helic 1.0 1 1 50.8 7.4 38 108-147 8-48 (103)
6 2khj_A 30S ribosomal protein S 1.0 1 1 50.3 6.8 41 105-147 24-64 (109)
7 2k4k_A GSP13, general stress p 1.0 1 1 50.2 9.0 39 108-148 3-41 (130)
8 3cdi_A Polynucleotide phosphor 1.0 1 1 48.7 0.0 25 86-114 156-180 (723)
9 2khi_A 30S ribosomal protein S 1.0 1 1 46.9 9.0 40 106-147 24-63 (115)
10 2k52_A Uncharacterized protein 1.0 1 1 46.5 8.1 36 110-147 3-38 (80)
No 1
>2bx2_L Ribonuclease E, RNAse E; RNA-binding, RNA turnover, RNA processing, hydrolase, endonu nuclease; 2.85A {Escherichia coli} PDB: 2c0b_L 2c4r_L 2vmk_A 2vrt_A 1slj_A 1smx_A 1sn8_A
Probab=1.00 E-value=1 Score=1068.56 Aligned_cols=491 Identities=30% Similarity=0.527 Sum_probs=455.8
Q ss_pred CCEEEEEEECCCCEEEEEEEECCEEEEEEEECCCCCCCCCCEEEEEEEEECCCCCEEEECCCCCCCEEEEECCCCCCCCC
Q ss_conf 73289998108973799999799796999621799875597699999551478653884005895445670456888757
Q 004498 74 VSTVILINSSICTMQRIAVLEDEKLVELLLEPVKSNVQCDSVYLGVVTKLVPNMGGAFVNIGNSRPSLMDIKHYREPFIF 153 (748)
Q Consensus 74 m~~~ilIn~s~~~e~RvAvledg~L~El~iE~~~~~~~~GnIY~GrV~kV~PgmqAAFVdIG~~r~gFL~~~d~~~~~~~ 153 (748)
|+++||||+++++++|+|+++||+|+||++|+......+||||+|+|+||+|+|||||||||.+|+||||++|+.+.++.
T Consensus 7 ~M~~ilI~~~~~ee~rvAl~e~~~L~el~iE~~~~~~~vGnIY~GkV~rv~p~~~aAFVdiG~gk~gfLhisei~~~~~~ 86 (517)
T 2bx2_L 7 HMKRMLINATQQEELRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEIAREYFP 86 (517)
T ss_dssp SCEEEEEECSCTTCEEEEEEETTEEEEEEEECSSSCCCTTCEEEEEEEEEETTTTEEEEESSSSSCEEEEGGGSCGGGCC
T ss_pred CHHEEEEECCCCCEEEEEEEECCEEEEEEEECCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCEEEEEHHHCCHHHHC
T ss_conf 03008887279975899999699999999853877678898899999776467734799957995799998996856632
Q ss_pred CCCCCCCHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCHHHHCCCCCCHHCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCC
Q ss_conf 93112100100146503566653202578888888510110044320000247998788899741244531158864579
Q 004498 154 PPFRCRTKKQEVNGSASAALEEHAVTYDNDSTSHNTEDVAEADSQDDLVQFEHNDDEEHDGDDFDVSEVLKNVNGSIIDD 233 (748)
Q Consensus 154 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (748)
.+ . . .
T Consensus 87 ~~------~-----------------------------------------------~--------------~-------- 91 (517)
T 2bx2_L 87 AN------Y-----------------------------------------------S--------------A-------- 91 (517)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CC------C-----------------------------------------------C--------------C--------
T ss_conf 44------3-----------------------------------------------3--------------3--------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCEE
Q ss_conf 99985423333588888899888889988999999998999888899998853321335897899999733889988523
Q 004498 234 GEPEADFEDFLEGDHHLDGESNGFFPSKSEVPDDSHTSHPQGTKDSKHTPGEKTWLQVQKGTKVIVQVVKEGLGTKGPTL 313 (748)
Q Consensus 234 ~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lk~Gq~ILVQV~KE~~g~KGp~L 313 (748)
. . ..++...|++||+|+|||+|+|+|+|||+|
T Consensus 92 --------------------------------~-~---------------~~~i~d~lk~Gq~VlVQV~Ke~~g~KGa~l 123 (517)
T 2bx2_L 92 --------------------------------H-G---------------RPNIKDVLREGQEVIVQIDKEERGNKGAAL 123 (517)
T ss_dssp --------------------------------------------------CCCGGGTCCTTCEEEEEEEECCCTTCCCEE
T ss_pred --------------------------------C-C---------------CCCHHHHCCCCCEEEEEEEEECCCCCCCEE
T ss_conf --------------------------------4-4---------------566665166899899999851444678327
Q ss_pred EECCEECCEEEEEEECCCCE-EEECCCCHHHHHHHHHHHHHH-CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 21350056049996089963-462378957889999999860-9997009995058999999999999999999999999
Q 004498 314 TAYPKLRSRFWILITSCDRI-GVSRKITGVERTRLKVIAKTL-QPEGFGLTIRTVAAGHSLEELQKDLEGLLSTWKNIME 391 (748)
Q Consensus 314 T~~IsL~GRYlVl~P~~~~v-giSrKI~~~eR~rLk~i~~~l-~p~~~GiIiRTaA~~~~~eeL~~Dl~~L~~~W~~I~~ 391 (748)
|++|||||||+||||+++++ ||||||++++|+||++++..+ .|+++|+|+||+|+|+++++|.+|+++|.++|+.|.+
T Consensus 124 Tt~isl~GRylVl~P~~~~~~giSrkI~~~eR~rLk~~~~~~~~~~~~G~IvRT~a~g~~~eel~~dl~~L~~~w~~I~~ 203 (517)
T 2bx2_L 124 TTFISLAGSYLVLMPNNPRAGGISRRIEGDDRTELKEALASLELPEGMGLIVRTAGVGKSAEALQWDLSFRLKHWEAIKK 203 (517)
T ss_dssp ESSCCEECSSEEEETTCTTCCEECTTCC------HHHHHTTSCCCTTCEEEECGGGGGCCHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEEECCCEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 76678635239995799876731354786899999999986047888549997256798999999999999999999999
Q ss_pred HHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHH-CCCCCCCEEECCCCCCCC
Q ss_conf 9998554310376788761475237831343441026885499995967899999999863-889668523315777831
Q 004498 392 HAKSAALAADEGVEGAVPILLHRAMGQTLSIVQDYFNEKVKKMVVDSPRTYHEVTSYLQDI-APDLCDRVELYDKRIPLF 470 (748)
Q Consensus 392 ~a~~~~l~~~eg~~~~~P~LLy~e~~~~~~~lRD~~~~~i~~IiVD~~~~y~~i~~~l~~~-~P~~~~ri~ly~~~~plF 470 (748)
+++.+ ++|.|||++.+++.+++||++++++++|+||+++.|+++++|++.+ +|+...++++|++..|+|
T Consensus 204 ~~~~~----------~~P~ll~~e~~~~~r~lRD~~~~~~~~I~vd~~~~~~~~~~~~~~~~~p~~~~~v~~y~~~~plF 273 (517)
T 2bx2_L 204 AAESR----------PAPFLIHQESNVIVRAFRDYLRQDIGEILIDNPKVLELARQHIAALGRPDFSSKIKLYTGEIPLF 273 (517)
T ss_dssp HHHTS----------CSCEEEECCCCHHHHHHHHHCCTTEEEEEESCHHHHHHHHHHHHHTTCHHHHTTEEECCCSSCHH
T ss_pred HHHCC----------CCCEEEEECCCHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHH
T ss_conf 87169----------99879981673899999987147889999999999999999999724865466599984898856
Q ss_pred CCCCHHHHHHHHHCCCEECCCCCEEEEECCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEE
Q ss_conf 23579999996839916579993699922442299970499877778998766699999999999999986134798389
Q 004498 471 DKFNIEEEINNMLSKRVPLPNGGSLVIEQTEALVSIDVNGGHGMFGHGSSKEKAILDVNLAAAKQIARELRLRDIGGIIV 550 (748)
Q Consensus 471 ~~y~Ie~qIe~al~rrV~LpsGG~LVIE~TEALTvIDVNSGk~~~~~~~~~eet~l~tNlEAA~EIARQLRLRnIGGIIV 550 (748)
+.|+|+.||++|++++||||||||||||+||||||||||||++ +++.++++|+++||||||+||||||||||||||||
T Consensus 274 ~~y~ie~~i~~al~~~V~L~sGGylvIe~TEALt~IDVNsG~~--~~~~~~eet~~~tNleAA~EIaRQLRLRnlgGiIv 351 (517)
T 2bx2_L 274 SHYQIESQIESAFQREVRLPSGGSIVIDSTEALTAIDINSARA--TRGGDIEETAFNTNLEAADEIARQLRLRDLGGLIV 351 (517)
T ss_dssp HHTTCHHHHHHTTCSEEECTTSCEEEEEECSSCEEEEEECCC------CCHHHHHHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred HHCCHHHHHHHHHCCEEECCCCEEEEEECCCCEEEEECCCCCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCEEE
T ss_conf 7549899999974790876998399994673149997069987--78889899999999999999999986028986799
Q ss_pred EECCCCCCHHHHHHHHHHHHHHHHCCCCCCEEECCCCCEEEEEEECCCCCCCHHHCCCCCCCCCCCEEEECHHHHHHHHH
Q ss_conf 97579999665999999999987509999468216986167985148998700110154888877226722353699999
Q 004498 551 VDFIDMADDSNKRLVYEEVKKAVERDRSMVKVSELSRHGLMEITRKRVRPSVTFMISEPCTCCQGTGRVEALETSFSKIE 630 (748)
Q Consensus 551 IDFIDM~~~~~r~~V~~~Lk~alk~Dr~k~~V~giT~LGLlEiTRKR~r~sL~e~l~e~Cp~C~G~G~v~s~et~~~~i~ 630 (748)
||||||.+++||++|++.|+++|++|+++++|++||+||||||||||.|+||.+.++++||+|+|+|+|+|.++++++|+
T Consensus 352 IDFIdM~~~~~r~~v~~~l~~al~~Dr~k~~v~~~S~lGLvEmTRkR~r~sL~e~~~~~Cp~C~G~G~v~s~~~~~~~i~ 431 (517)
T 2bx2_L 352 IDFIDMTPVRHQRAVENRLREAVRQDRARIQISHISRFGLLEMSRQRLSPSLGESSHHVCPRCSGTGTVRDNESLSLSIL 431 (517)
T ss_dssp EECCCCSSHHHHHHHHHHHHHHTTTCSSCEEEEEECTTSEEEEEECCCSCCHHHHHCCCCSSSSSSSCCCCHHHHHHHHH
T ss_pred EECCCCCCHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCEEEEEECCCCCCHHHHHCCCCCCCCCCEEECCHHHHHHHHH
T ss_conf 98999998789999999999998309998689166787207995047476834351274998688225778999999999
Q ss_pred HHHHHHHHHHHCCCCCCCCCCCCEEEEEECHHHHHHHHCCCHHHHHHHHHHC-CCEEEEEECCCCCCCCEEEEEECCCCC
Q ss_conf 9999999861115899999998819999799899999716212799998741-995999918999986459999327863
Q 004498 631 QEISRLLAMMEQKADPENPKSWPRFILRVDHHMCNYLTSGKRTRLAVLSSSL-KAWILLKVARGFTRGAFEVIPYTDDKA 709 (748)
Q Consensus 631 r~i~r~~~~~~~~~~~~~~~~~~~i~i~v~p~V~~~L~~~~~~~l~~Le~~~-~~~I~i~~~~~~~~~~~~i~~~~~~~~ 709 (748)
|+|.+...... ...+.+.+||.|+.||+++++.++..||.++ +++|.+.++++|+.++|+|...++++.
T Consensus 432 R~i~~~~~~~~----------~~~~~~~~~~~va~~l~~~~~~~l~~le~~~~~~~i~i~~~~~~~~~~y~i~~~~~~~~ 501 (517)
T 2bx2_L 432 RLIEEEALKEN----------TQEVHAIVPVPIASYLLNEKRSAVNAIETRQDGVRCVIVPNDQMETPHYHVLRVRKGEE 501 (517)
T ss_dssp HHHHHHHHSTT----------EEEEEEEECHHHHHHHTTTTHHHHHHHHHHTTTCEEEEEECTTCCTTCCEEEEEETTCC
T ss_pred HHHHHHHHHCC----------CCEEEEEECHHHHHHHHHCCHHHHHHHHHHCCCCEEEEEECCCCCCCCEEEEECCCCCC
T ss_conf 99999886569----------96599998999999997520478999998737965999978999877569998667864
No 2
>3cw2_C Translation initiation factor 2 subunit alpha; AIF2, intact AIF2, initiation factor 2 alpha subunit, initiation factor 2 beta subunit; 2.80A {Sulfolobus solfataricus} PDB: 2aho_B 3v11_B*
Probab=1.00 E-value=1 Score=88.95 Aligned_cols=131 Identities=11% Similarity=0.136 Sum_probs=95.1
Q ss_pred CCCCCCEEEEEEEEECCCCCEEEECCC--CCCCEEEEECCCCCCCCCCCCCCCCHHHHCCCCCHHHHHHHHCCCCCCCCC
Q ss_conf 875597699999551478653884005--895445670456888757931121001001465035666532025788888
Q 004498 109 NVQCDSVYLGVVTKLVPNMGGAFVNIG--NSRPSLMDIKHYREPFIFPPFRCRTKKQEVNGSASAALEEHAVTYDNDSTS 186 (748)
Q Consensus 109 ~~~~GnIY~GrV~kV~PgmqAAFVdIG--~~r~gFL~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 (748)
...+|+||.|+|++|.| .||||+|+ .+..||+|+++....++
T Consensus 8 ~~~vG~iv~G~V~~I~~--~GaFV~l~e~~~~~GlihiSels~~~v---------------------------------- 51 (266)
T 3cw2_C 8 LPSEGEILIATVKQVFD--YGSYVSLDEYGGLQAFLPWSEVSSKWV---------------------------------- 51 (266)
T ss_dssp SCCTTCEEEEEEEECCS--SSBEEEETTTTSEECBBCGGGSSCSSC----------------------------------
T ss_pred CCCCCCEEEEEEEEEEC--CEEEEEECCCCCEEEEEEHHHCCCCCC----------------------------------
T ss_conf 68889999999999965--689999867788699998688186543----------------------------------
Q ss_pred CCCCHHHHCCCCCCHHCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 88510110044320000247998788899741244531158864579999854233335888888998888899889999
Q 004498 187 HNTEDVAEADSQDDLVQFEHNDDEEHDGDDFDVSEVLKNVNGSIIDDGEPEADFEDFLEGDHHLDGESNGFFPSKSEVPD 266 (748)
Q Consensus 187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 266 (748)
T Consensus 52 -------------------------------------------------------------------------------- 51 (266)
T 3cw2_C 52 -------------------------------------------------------------------------------- 51 (266)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCEEEECCEECCEEEEEEECCCCEEEECCCCHHHHHH
Q ss_conf 99998999888899998853321335897899999733889988523213500560499960899634623789578899
Q 004498 267 DSHTSHPQGTKDSKHTPGEKTWLQVQKGTKVIVQVVKEGLGTKGPTLTAYPKLRSRFWILITSCDRIGVSRKITGVERTR 346 (748)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~~~~~lk~Gq~ILVQV~KE~~g~KGp~LT~~IsL~GRYlVl~P~~~~vgiSrKI~~~eR~r 346 (748)
.+....++.||.|.|||++... ...++.+|.|.... ..
T Consensus 52 ------------------~~~~~~~~vGd~V~VkVi~vd~----------------------~~g~I~LSlk~~~~--~~ 89 (266)
T 3cw2_C 52 ------------------KNIRDVLKENRKVIVKVIRVDR----------------------RKGTVDVSLKKVTD--DE 89 (266)
T ss_dssp ------------------CCHHHHSCTTCEEEEEECCCCS----------------------SSCCCBEESTTSCT--TH
T ss_pred ------------------CCHHHHCCCCCEEEEEEEEEEC----------------------CCCEEEEEEEECCH--HH
T ss_conf ------------------6889937699899999999968----------------------89979999986562--25
Q ss_pred HHHHHHHHCC-CCCEEEEEECCCCCC--HHHHHHHH-HHHHHHHHHHHHHHHHHH
Q ss_conf 9999986099-970099950589999--99999999-999999999999999855
Q 004498 347 LKVIAKTLQP-EGFGLTIRTVAAGHS--LEELQKDL-EGLLSTWKNIMEHAKSAA 397 (748)
Q Consensus 347 Lk~i~~~l~p-~~~GiIiRTaA~~~~--~eeL~~Dl-~~L~~~W~~I~~~a~~~~ 397 (748)
|+...+.+.+ ...+.|+|+.+.+.+ .+++..++ .+|.+.|..+...++.+.
T Consensus 90 ~~~~~~~~~~~~~~~~iv~~lae~~~~~~ee~~~~i~~~l~~~~~~~~~aFk~a~ 144 (266)
T 3cw2_C 90 RRKKNLQWKKIQRLDKILELVSQKLKLSEKDAWEQVAWKLEAKYGDPITAIEKAV 144 (266)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHTHHHHHTTSSCHHHHHHHHH
T ss_pred HHHHHHHCCCCCCCCEEEEEHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 8899985346674524510626348998789899999999999846999999986
No 3
>1q8k_A Eukaryotic translation initiation factor 2 subunit 1; NMR {Homo sapiens} SCOP: a.60.14.1 b.40.4.5 d.58.51.1
Probab=1.00 E-value=1 Score=75.39 Aligned_cols=195 Identities=11% Similarity=0.099 Sum_probs=100.3
Q ss_pred CCCCCCCEEEEEEEECCCCCCCCEEEECCEECCEEEEEEECCCCEEEECCCCHHHHHHHHHHHHHHCCC--CCEEEEEEC
Q ss_conf 133589789999973388998852321350056049996089963462378957889999999860999--700999505
Q 004498 289 LQVQKGTKVIVQVVKEGLGTKGPTLTAYPKLRSRFWILITSCDRIGVSRKITGVERTRLKVIAKTLQPE--GFGLTIRTV 366 (748)
Q Consensus 289 ~~lk~Gq~ILVQV~KE~~g~KGp~LT~~IsL~GRYlVl~P~~~~vgiSrKI~~~eR~rLk~i~~~l~p~--~~GiIiRTa 366 (748)
..++.||.|.|+|.+-. |...++.+|.|.... ..++.+...+... -.|.|.|++
T Consensus 58 ~~~kvGd~V~VkVl~vD----------------------~~~~rI~LSlK~~~~--~p~~~~~~~~~~G~~v~G~V~~v~ 113 (308)
T 1q8k_A 58 KLIRIGRNECVKVIRVD----------------------KEKGYIDLSKRRVSP--EEAIKCEDKFTKSKTVYSILRHVA 113 (308)
T ss_dssp TTCSSSCEEEEEEEEEE----------------------TTTTEEEEECSSCCH--HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHCCCCCEEEEEEEEEE----------------------CCCCEEEEEEEECCC--CHHHHHHHHCCCCCEEEEEEEECC
T ss_conf 82689999999999991----------------------778879999986355--737889997068980379999934
Q ss_pred CC-CC----CHHHHHHHH-HHHHHHHHH----HHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHHHCCCCCCEEEE
Q ss_conf 89-99----999999999-999999999----999999855431037678876147523783134344102688549999
Q 004498 367 AA-GH----SLEELQKDL-EGLLSTWKN----IMEHAKSAALAADEGVEGAVPILLHRAMGQTLSIVQDYFNEKVKKMVV 436 (748)
Q Consensus 367 A~-~~----~~eeL~~Dl-~~L~~~W~~----I~~~a~~~~l~~~eg~~~~~P~LLy~e~~~~~~~lRD~~~~~i~~IiV 436 (748)
.. |+ +.++|..++ ..|.+.+.. +...++.+. ..|. ++.++ ++
T Consensus 114 ~~~G~fi~~~~e~l~~~i~~~l~~~~g~~~~~~y~af~~a~---------~~~~-----------~l~~~---~i----- 165 (308)
T 1q8k_A 114 EVLEYTKDEQLESLFQRTAWVFDDKYKRPGYGAYDAFKHAV---------SDPS-----------ILDSL---DL----- 165 (308)
T ss_dssp HHTTCCSSHHHHHHHHHTHHHHHHHTTCSSHHHHHHHHHTT---------TCGG-----------GGGGC---CC-----
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHC---------CCHH-----------HHHHC---CC-----
T ss_conf 45698367788999999888999870886333999999871---------7954-----------55226---99-----
Q ss_pred CCHHHHHHHHHHHHHHCCCCCCCEEECCCCCCCCCCCCHHHHHHHHHCCCEECCC-CCEEEEECC-CCEEEEEECCCCCC
Q ss_conf 5967899999999863889668523315777831235799999968399165799-936999224-42299970499877
Q 004498 437 DSPRTYHEVTSYLQDIAPDLCDRVELYDKRIPLFDKFNIEEEINNMLSKRVPLPN-GGSLVIEQT-EALVSIDVNGGHGM 514 (748)
Q Consensus 437 D~~~~y~~i~~~l~~~~P~~~~ri~ly~~~~plF~~y~Ie~qIe~al~rrV~Lps-GG~LVIE~T-EALTvIDVNSGk~~ 514 (748)
++...+.+.+.++.......-+|.-+- ...-|..-||+. |.++|..--.+.. ..-+-|.-. --+.+|.|.+--
T Consensus 166 -~~~~~~~l~~~~~~~l~~~~vkI~~~i-el~~~~~dGIe~-Ik~aL~~~~~~~~~~~~i~i~~v~~P~Y~i~~~~~d-- 240 (308)
T 1q8k_A 166 -NEDEREVLINNINRRLTPQAVKIRADI-EVACYGYEGIDA-VKEALRAGLNCSTENMPIKINLIAPPRYVMTTTTLE-- 240 (308)
T ss_dssp -CHHHHHHHHHHHHHHTSCCCCEEEECC-CEECCSTTTHHH-HHHHHHHHHHSSBTTBCEEEEEEETTEEEEEEECSS--
T ss_pred -CHHHHHHHHHHHHHHCCCCCCEEEEEE-EEEECCCCHHHH-HHHHHHHHHHCCCCCCCEEEEEECCCEEEEEEEECC--
T ss_conf -989999999999974668881699999-999558874999-999999766326767648999977977999997388--
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCE
Q ss_conf 77899876669999999999999998613479838
Q 004498 515 FGHGSSKEKAILDVNLAAAKQIARELRLRDIGGII 549 (748)
Q Consensus 515 ~~~~~~~eet~l~tNlEAA~EIARQLRLRnIGGII 549 (748)
. +++.++--+|+..|-..|.= .||-.
T Consensus 241 ------~-k~~~~~l~~~~~~i~~~i~~--~gG~~ 266 (308)
T 1q8k_A 241 ------R-TEGLSVLSQAMAVIKEKIEE--KRGVF 266 (308)
T ss_dssp ------H-HHHHHHHHHHHHHHHHHHHT--TSCEE
T ss_pred ------H-HHHHHHHHHHHHHHHHHHHH--HCCEE
T ss_conf ------9-99999999999999999998--39779
No 4
>2cqo_A Nucleolar protein of 40 kDa; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=51.40 Aligned_cols=38 Identities=21% Similarity=0.343 Sum_probs=32.8
Q ss_pred CCCCCCCEEEEEEEEECCCCCEEEECCCC-CCCEEEEECCC
Q ss_conf 98755976999995514786538840058-95445670456
Q 004498 108 SNVQCDSVYLGVVTKLVPNMGGAFVNIGN-SRPSLMDIKHY 147 (748)
Q Consensus 108 ~~~~~GnIY~GrV~kV~PgmqAAFVdIG~-~r~gFL~~~d~ 147 (748)
....+|+||.|+|++|.+ .+|||+|+. +..||+|++++
T Consensus 18 ~~~~vG~iv~G~V~~I~~--fGaFV~l~g~~~~Glvhisel 56 (119)
T 2cqo_A 18 NLPALYTIFQGEVAMVTD--YGAFIKIPGCRKQGLVHRTHM 56 (119)
T ss_dssp CSCCTTCEEEEEEEEEET--TEEEEECTTCSSCEEEEHHHH
T ss_pred CCCCCCCEEEEEEEEEEC--CEEEEEECCCCEEEEEEHHHC
T ss_conf 035799999999999967--669999779857999998997
No 5
>2eqs_A ATP-dependent RNA helicase DHX8; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=50.76 Aligned_cols=38 Identities=24% Similarity=0.403 Sum_probs=33.8
Q ss_pred CCCCCCCEEEEEEEEECCCCCEEEECCCC---CCCEEEEECCC
Q ss_conf 98755976999995514786538840058---95445670456
Q 004498 108 SNVQCDSVYLGVVTKLVPNMGGAFVNIGN---SRPSLMDIKHY 147 (748)
Q Consensus 108 ~~~~~GnIY~GrV~kV~PgmqAAFVdIG~---~r~gFL~~~d~ 147 (748)
....+|+||.|+|++|.+ .+|||+|+. +..||+|+++.
T Consensus 8 ~~~~vG~i~~G~V~~v~~--fG~FV~l~~~~~~~~Glvhisel 48 (103)
T 2eqs_A 8 EEPTIGDIYNGKVTSIMQ--FGCFVQLEGLRKRWEGLVHISEL 48 (103)
T ss_dssp SSCCTTCEEEEEEEEECS--SCEEEEECSSSSCCEEEECGGGT
T ss_pred CCCCCCCEEEEEEEEEEC--CEEEEEECCCCCCEEEEEEHHHC
T ss_conf 347899999999999966--58999983877982999998998
No 6
>2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=1.00 E-value=1 Score=50.28 Aligned_cols=41 Identities=15% Similarity=0.137 Sum_probs=35.1
Q ss_pred CCCCCCCCCCEEEEEEEEECCCCCEEEECCCCCCCEEEEECCC
Q ss_conf 1799875597699999551478653884005895445670456
Q 004498 105 PVKSNVQCDSVYLGVVTKLVPNMGGAFVNIGNSRPSLMDIKHY 147 (748)
Q Consensus 105 ~~~~~~~~GnIY~GrV~kV~PgmqAAFVdIG~~r~gFL~~~d~ 147 (748)
.......+|+||.|+|++|.+. +|||+|+.+..||+++++.
T Consensus 24 ~~~~~~~~G~iv~G~V~~v~~~--G~fV~l~~~~~Gll~~sel 64 (109)
T 2khj_A 24 NWVALNKKGAIVTGKVTAVDAK--GATVELADGVEGYLRASEA 64 (109)
T ss_dssp HHTTTCCSSSEEEEEEEEECSS--CEEEECSTTCBCCBCTTCC
T ss_pred HHHHCCCCCCEEEEEEEEEECC--EEEEEECCCCEEEEEHHHC
T ss_conf 8763279999999999999788--2999979998999998996
No 7
>2k4k_A GSP13, general stress protein 13; cytoplasm, stress response, RNA binding protein; NMR {Bacillus subtilis}
Probab=1.00 E-value=1 Score=50.19 Aligned_cols=39 Identities=33% Similarity=0.508 Sum_probs=34.5
Q ss_pred CCCCCCCEEEEEEEEECCCCCEEEECCCCCCCEEEEECCCC
Q ss_conf 98755976999995514786538840058954456704568
Q 004498 108 SNVQCDSVYLGVVTKLVPNMGGAFVNIGNSRPSLMDIKHYR 148 (748)
Q Consensus 108 ~~~~~GnIY~GrV~kV~PgmqAAFVdIG~~r~gFL~~~d~~ 148 (748)
....+|+||.|+|++|.|. +|||+|+.+..||+|++++.
T Consensus 3 ~~~~vG~iv~G~V~~i~~~--G~FV~l~~~~~Glihisel~ 41 (130)
T 2k4k_A 3 AKFEVGSVYTGKVTGLQAY--GAFVALDEETQGLVHISEVT 41 (130)
T ss_dssp CCCCTTCEEEEEEEEEETT--EEEEEEETTEEEEEEGGGTS
T ss_pred CCCCCCCEEEEEEEEEECC--EEEEEECCCCEEEEEHHHCC
T ss_conf 7578999999999999688--69999799929999979978
No 8
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A
Probab=1.00 E-value=1 Score=48.69 Aligned_cols=25 Identities=12% Similarity=0.420 Sum_probs=15.1
Q ss_pred CEEEEEEEECCEEEEEEEECCCCCCCCCC
Q ss_conf 73799999799796999621799875597
Q 004498 86 TMQRIAVLEDEKLVELLLEPVKSNVQCDS 114 (748)
Q Consensus 86 ~e~RvAvledg~L~El~iE~~~~~~~~Gn 114 (748)
--.||++++ | +|.+.+...+....+
T Consensus 156 ~av~vg~i~-g---~~v~nPt~~e~~~s~ 180 (723)
T 3cdi_A 156 GAARVGYIN-D---QYVLNPTQDELKESK 180 (723)
T ss_dssp CCEEEEEET-T---EEEESCCTTGGGGCS
T ss_pred EEEEEEEEC-C---EEEECCCHHHHHHCC
T ss_conf 899999999-9---999896989997188
No 9
>2khi_A 30S ribosomal protein S1; acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli}
Probab=1.00 E-value=1 Score=46.89 Aligned_cols=40 Identities=23% Similarity=0.320 Sum_probs=35.2
Q ss_pred CCCCCCCCCEEEEEEEEECCCCCEEEECCCCCCCEEEEECCC
Q ss_conf 799875597699999551478653884005895445670456
Q 004498 106 VKSNVQCDSVYLGVVTKLVPNMGGAFVNIGNSRPSLMDIKHY 147 (748)
Q Consensus 106 ~~~~~~~GnIY~GrV~kV~PgmqAAFVdIG~~r~gFL~~~d~ 147 (748)
......+|++|.|+|++|.| .+|||+|+.+..||+|+++.
T Consensus 24 ~~~~~~~G~~~~G~V~~v~~--~G~FV~l~~~~~Glvhisel 63 (115)
T 2khi_A 24 IAKRYPEGTKLTGRVTNLTD--YGCFVEIEEGVEGLVHVSEM 63 (115)
T ss_dssp SSCSSCSSCEEEEEEEEEET--TEEEEECSTTCEEEEETTSS
T ss_pred HHHCCCCCCEEEEEEEEEEC--CEEEEEECCCCEEEEEHHHC
T ss_conf 75337999999999999977--88999979997999997998
No 10
>2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger, structural genomics, PSI-2, protein structure initiative; NMR {Methanocaldococcus jannaschii}
Probab=1.00 E-value=1 Score=46.51 Aligned_cols=36 Identities=31% Similarity=0.504 Sum_probs=32.4
Q ss_pred CCCCCEEEEEEEEECCCCCEEEECCCCCCCEEEEECCC
Q ss_conf 75597699999551478653884005895445670456
Q 004498 110 VQCDSVYLGVVTKLVPNMGGAFVNIGNSRPSLMDIKHY 147 (748)
Q Consensus 110 ~~~GnIY~GrV~kV~PgmqAAFVdIG~~r~gFL~~~d~ 147 (748)
..+|++|.|+|+++.| .+|||+|+.+..||+++++.
T Consensus 3 ~~~G~iv~G~V~~v~~--~G~fV~l~~~~~Gllh~sel 38 (80)
T 2k52_A 3 VEPGKFYKGVVTRIEK--YGAFINLNEQVRGLLRPRDM 38 (80)
T ss_dssp CCTTCEEEEEEEEEET--TEEEEEEETTEEEEECGGGC
T ss_pred CCCCCEEEEEEEEEEC--CEEEEEECCCCEEEEEHHHC
T ss_conf 7789999999999938--87999989998999998998
Done!