Query gi|254780715|ref|YP_003065128.1| 50S ribosomal protein L19 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 141 No_of_seqs 113 out of 921 Neff 4.8 Searched_HMMs 23785 Date Tue May 31 15:53:21 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780715.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2zjr_M 50S ribosomal protein L 100.0 1.4E-45 0 307.8 4.8 116 2-123 11-126 (166) 2 2j01_T 50S ribosomal protein L 100.0 4.2E-45 0 303.8 -0.8 116 1-121 1-119 (146) 3 3ofq_P 50S ribosomal protein L 100.0 5.6E-45 0 303.0 -1.3 112 2-118 2-113 (114) 4 3bbo_R Ribosomal protein L19; 100.0 7.6E-44 0 295.9 -5.0 114 1-115 120-233 (233) 5 2ftc_K 39S ribosomal protein L 100.0 4.3E-38 1.8E-42 259.6 8.8 98 21-119 1-98 (98) 6 1zq1_A Glutamyl-tRNA(Gln) amid 81.5 1.9 8.2E-05 22.1 4.7 63 24-95 12-74 (438) 7 3m4w_A Sigma-E factor regulato 74.0 4.7 0.0002 19.7 4.9 51 42-95 15-65 (295) 8 2e6z_A Transcription elongatio 69.7 5.9 0.00025 19.1 6.0 50 21-81 5-54 (59) 9 1nz9_A Transcription antitermi 66.4 6.3 0.00026 18.9 4.1 36 23-65 4-39 (58) 10 1jb7_A Telomere-binding protei 66.2 5.2 0.00022 19.4 3.7 44 18-68 107-151 (495) 11 2zzd_A Thiocyanate hydrolase s 63.0 3.9 0.00016 20.2 2.5 38 19-57 32-73 (126) 12 3hks_A EIF-5A-2, eukaryotic tr 61.3 8.6 0.00036 18.1 5.2 64 22-92 32-95 (167) 13 3hht_B NitrIle hydratase beta 59.0 5 0.00021 19.5 2.5 38 19-57 137-178 (229) 14 1ugp_B NitrIle hydratase beta 58.9 5.1 0.00021 19.5 2.5 38 19-57 134-175 (226) 15 1bkb_A Translation initiation 50.7 13 0.00054 17.0 5.1 63 21-92 11-75 (136) 16 3esi_A Uncharacterized protein 49.4 13 0.00056 16.8 4.8 42 23-66 77-118 (129) 17 1vq8_T 50S ribosomal protein L 44.2 16 0.00068 16.3 5.6 74 17-101 37-113 (120) 18 1iz6_A Initiation factor 5A; S 43.3 17 0.0007 16.3 5.2 65 20-93 8-74 (138) 19 1u1z_A (3R)-hydroxymyristoyl-[ 40.5 18 0.00077 16.0 4.1 30 23-53 120-149 (168) 20 3a8g_B NitrIle hydratase subun 35.2 12 0.00051 17.1 1.4 32 20-52 119-154 (212) 21 2equ_A PHD finger protein 20-l 34.1 23 0.00097 15.3 4.2 50 18-80 4-53 (74) 22 2wwb_L 60S ribosomal protein L 31.1 26 0.0011 15.0 4.2 73 17-100 44-118 (127) 23 2rm4_A CG6311-PB, DM EDC3; enh 30.7 26 0.0011 15.0 5.1 60 23-92 8-71 (103) 24 2jvv_A Transcription antitermi 30.5 26 0.0011 15.0 4.4 10 23-32 127-136 (181) 25 2zkr_t 60S ribosomal protein L 28.0 29 0.0012 14.7 6.0 75 16-101 42-119 (145) 26 2fhd_A RAD9 homolog, DNA repai 27.7 22 0.00091 15.5 1.6 11 22-32 62-72 (153) 27 1qzg_A Protection of telomeres 26.9 30 0.0013 14.6 3.6 29 59-89 67-98 (187) 28 3cpf_A Eukaryotic translation 25.7 32 0.0013 14.4 4.4 59 22-91 10-72 (138) 29 2eif_A IF-5A, protein (eukaryo 24.8 33 0.0014 14.3 5.6 66 20-92 12-77 (136) 30 1dj7_B Ferredoxin thioredoxin 23.7 31 0.0013 14.5 1.8 42 24-65 1-53 (75) 31 1hr0_W Translation initiation 23.0 21 0.0009 15.6 0.9 22 23-44 46-67 (71) 32 2d6f_A Glutamyl-tRNA(Gln) amid 21.3 39 0.0016 13.9 3.1 59 23-95 15-73 (435) 33 3gb3_A Killerred; fluorescent 20.9 25 0.0011 15.1 0.9 44 42-89 91-137 (235) 34 2eyx_A V-CRK sarcoma virus CT1 20.6 37 0.0015 14.1 1.7 24 22-51 25-48 (67) 35 2do3_A Transcription elongatio 20.1 41 0.0017 13.7 3.3 28 23-57 17-44 (69) No 1 >2zjr_M 50S ribosomal protein L19; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.6 PDB: 1nwx_N* 1nwy_N* 1sm1_N* 1xbp_N* 2zjp_M* 2zjq_M 1nkw_N 3cf5_M* 3dll_M* 1pnu_N 1pny_N 1vor_Q 1vou_Q 1vow_Q 1voy_Q 1vp0_Q Probab=100.00 E-value=1.4e-45 Score=307.85 Aligned_cols=116 Identities=52% Similarity=0.955 Sum_probs=107.1 Q ss_pred CHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECC Q ss_conf 35899979999997602798973789989999998358877401234535431366664338863003561302899910 Q gi|254780715|r 2 NIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLY 81 (141) Q Consensus 2 nli~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~ 81 (141) ++|+.+|++++ +++|+|+|||||+|+++|.||+|+|+|.|+|+||+++++|+++||||||+++|+|||++|||| T Consensus 11 ~li~~ie~~~~------k~iP~f~~GDtv~V~~~i~Eg~k~RiQ~FeGvvIa~~~~g~~stftvRki~~G~GVEr~fpl~ 84 (166) T 2zjr_M 11 ELLRGIEQDHT------RQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTVRKISFGEGVERVFPFA 84 (166) T ss_dssp HHHHHTTGGGC------CCCCCCSSSEEEEEECCTTSSSCCCCEEEECCEEECCCCGGGCEEEEEEEETTEEEEEEEETT T ss_pred HHHHHHHHHHC------CCCCCCCCCCEEEEEEEECCCCCEEEEEEEEEEEEEECCCCCCEEEEEEEECCCCEEEEEEEC T ss_conf 99999999847------789984899899999997268840513677999998279987538868885485369998716 Q ss_pred CCCEEEEEEEECCHHHHHHHHHHCCCCCCEEEHHHHCCCCCC Q ss_conf 786101222000204678768750888410220120012123 Q gi|254780715|r 82 SPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKENTGKRAK 123 (141) Q Consensus 82 SP~i~~Iev~r~gkvRrakLyYLR~~~gk~arik~~~~~~~~ 123 (141) ||+|++|+|+++|+|||||||||||+.||+|||+++...... T Consensus 85 SP~I~~IeVvr~gkvRRAKLYYLR~~~GK~aRike~~~~~~~ 126 (166) T 2zjr_M 85 SPLVNQVTIVERGKVRRAKLYYLRELRGKAARIKSDRSRVMK 126 (166) T ss_dssp CTTEEEEEEEECCCCSSSCCGGGCC----------------- T ss_pred CCCCCEEEEEECCCHHHHHHHHHHCCCCHHHHHHHHHHHHCC T ss_conf 987425889870541456667663372267777787752211 No 2 >2j01_T 50S ribosomal protein L19; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: b.34.5.6 PDB: 2hgq_S 2hgj_S 2hgu_S 2j03_T 2jl6_T 2jl8_T 2v47_T 2v49_T 2wdi_T 2wdj_T 2wdl_T 2wdn_T 2wh2_T 2wh4_T 2wrj_T 2wrl_T 2wro_T 2wrr_T 2x9s_T 2x9u_T ... Probab=100.00 E-value=4.2e-45 Score=303.76 Aligned_cols=116 Identities=42% Similarity=0.818 Sum_probs=109.4 Q ss_pred CCH---HHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEE Q ss_conf 935---89997999999760279897378998999999835887740123453543136666433886300356130289 Q gi|254780715|r 1 MNI---IDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRL 77 (141) Q Consensus 1 Mnl---i~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~ 77 (141) ||. |+.+|.+++ +.++|+|+|||||+|++++.||+|+|+|.|+|+||+++++|+++||||||+++|+|||++ T Consensus 1 m~~~~li~~ie~~~~-----k~~~P~f~~GDtV~V~~~i~eg~k~Riq~F~GvvI~~~~~G~~~tftvRki~~g~GVEr~ 75 (146) T 2j01_T 1 MNRGALIKLVESRYV-----RTDLPEFRPGDTVRVSYKVKEGNRTRIQDFEGIVIRIRRNGFNTTFTVRKVSYGVGVERI 75 (146) T ss_dssp CTTHHHHHHHHCCCC-----CSCSCCCCSSCBBCCCCCCBTTBSCCCCCCBCEEEEEECCSSSCEEEEEEEETTEEEEEE T ss_pred CCHHHHHHHHHHHHC-----CCCCCCCCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCCCCEEEEEEEECCCCEEEE T ss_conf 988999999999764-----157997089889999999705886314566688998737996744899998469528999 Q ss_pred EECCCCCEEEEEEEECCHHHHHHHHHHCCCCCCEEEHHHHCCCC Q ss_conf 99107861012220002046787687508884102201200121 Q gi|254780715|r 78 FPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKENTGKR 121 (141) Q Consensus 78 fpl~SP~i~~Iev~r~gkvRrakLyYLR~~~gk~arik~~~~~~ 121 (141) ||||||+|++|||+++|+|||||||||||+.||+|||+++.... T Consensus 76 fpl~SP~I~~IeVir~gkvRRAKLYYLR~~~gK~arike~~~~~ 119 (146) T 2j01_T 76 FPLHSPLIQKIDIVQRGRARRAKLYFIRNLSDREIRRKLRADRK 119 (146) T ss_dssp ECSSSSCSCCCBCCCCBCCSSSSCGGGSSSCSSSHHHHSBCCHH T ss_pred EECCCCCCCEEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHCCC T ss_conf 87179975779999726501445232305722476544441012 No 3 >3ofq_P 50S ribosomal protein L19; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_N 1p86_N 2awb_P 2gya_N 2gyc_N 2aw4_P 2i2v_P 2j28_P 2i2t_P* 2qao_P* 2qba_P* 2qbc_P* 2qbe_P 2qbg_P 2qbi_P* 2qbk_P* 2qov_P 2qox_P 2qoz_P* 2qp1_P* ... Probab=100.00 E-value=5.6e-45 Score=303.02 Aligned_cols=112 Identities=55% Similarity=0.917 Sum_probs=109.2 Q ss_pred CHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECC Q ss_conf 35899979999997602798973789989999998358877401234535431366664338863003561302899910 Q gi|254780715|r 2 NIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLY 81 (141) Q Consensus 2 nli~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~ 81 (141) |+|+++|++++ ++++|+|+|||||+|++++.||+|+|+|.|+|+||+++++|+++||||||+++|+|||++|||| T Consensus 2 nli~~le~~~~-----k~~iP~f~~GDtV~V~~~i~eg~K~R~Q~feGvvIa~k~~G~~stftvRki~~g~GVEr~fpl~ 76 (114) T 3ofq_P 2 NIIKQLEQEQM-----KQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHSAFTVRKISNGEGVERVFQTH 76 (114) T ss_dssp TTTTTTTGGGC-----CSCCCCCCTTCCCCCCEECCCSSCCCEECCCCCCCBCCCSGGGCEEBCCCCBTTBCEECCEETT T ss_pred HHHHHHHHHHH-----HCCCCCCCCCCEEEEEEEEECCCCCCCCEEEEEEEEEECCCCCCEEEEEEECCCCCEEEEEECC T ss_conf 58999999985-----2549984999899999998368876432467999999899868439999972886599999877 Q ss_pred CCCEEEEEEEECCHHHHHHHHHHCCCCCCEEEHHHHC Q ss_conf 7861012220002046787687508884102201200 Q gi|254780715|r 82 SPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKENT 118 (141) Q Consensus 82 SP~i~~Iev~r~gkvRrakLyYLR~~~gk~arik~~~ 118 (141) ||+|++|||+++|||||||||||||+.||+|||+++. T Consensus 77 SP~I~~Iev~~~~kvRRaKLyYLR~~~gK~arike~~ 113 (114) T 3ofq_P 77 SPVVDSISVKRRGAVRKAKLYYLRERTGKAARIKERL 113 (114) T ss_dssp CGGGCCCCCCSCCCCCSSCCGGGSSCCTTTSCCCCCC T ss_pred CCCCCEEEEEECCCEEHHHEEEHHCCCCHHHHHHHHC T ss_conf 9996437998626231121201005711676422412 No 4 >3bbo_R Ribosomal protein L19; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Probab=100.00 E-value=7.6e-44 Score=295.88 Aligned_cols=114 Identities=33% Similarity=0.645 Sum_probs=110.8 Q ss_pred CCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEEC Q ss_conf 93589997999999760279897378998999999835887740123453543136666433886300356130289991 Q gi|254780715|r 1 MNIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPL 80 (141) Q Consensus 1 Mnli~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl 80 (141) +|+|+.||+++++....++++|+|++||||+|++++.|| |+|+|.|+|+||+++|+|+++||||||+++|+|||++||| T Consensus 120 ~~i~~~l~~~~ie~~~~~k~iP~fr~GDtV~V~~~i~Eg-k~R~Q~FeGvvIa~k~~gi~stftvRki~~GvGVEr~fpl 198 (233) T 3bbo_R 120 GDIMGILNKKAVHAAEELRPVPGIRTGDIVQIRLEVPEN-KRRLSVYKGIVISRQNAGIHTTIRIRRIIAGVGVEIVFPL 198 (233) T ss_dssp -CCSSSCSTTHHHHTTCCSCCSSSCCCSCCCCCCCBCCC-SSCCSCCBCCCCCSCBCCCSSSCBCBCCCCCSTTTCCCCC T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEECCC-CEEEEEEEEEEEEEECCCCCEEEEEEEECCCCCEEEEEEC T ss_conf 989999999999998634889976999889999997779-8677767999999858987358999996278538999866 Q ss_pred CCCCEEEEEEEECCHHHHHHHHHHCCCCCCEEEHH Q ss_conf 07861012220002046787687508884102201 Q gi|254780715|r 81 YSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIK 115 (141) Q Consensus 81 ~SP~i~~Iev~r~gkvRrakLyYLR~~~gk~arik 115 (141) |||+|++|+|+++|||||||||||||+.||+|||| T Consensus 199 ~SP~I~~IeVvr~gKVRRAKLYYLRdr~gk~ariK 233 (233) T 3bbo_R 199 YSPNIKEIKVVSHRKVRKARLYYLRDKLPRLSTFK 233 (233) T ss_dssp BSSSSSCCCCCCCSCCCCSCSSCCCCSSTTCSSCC T ss_pred CCCCCCEEEEEECCCCHHHHHHHHHCCCCCCCCCC T ss_conf 79965659998636400444455504766333749 No 5 >2ftc_K 39S ribosomal protein L19, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} Probab=100.00 E-value=4.3e-38 Score=259.58 Aligned_cols=98 Identities=33% Similarity=0.588 Sum_probs=94.9 Q ss_pred CCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEECCHHHHHH Q ss_conf 89737899899999983588774012345354313666643388630035613028999107861012220002046787 Q gi|254780715|r 21 LPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSK 100 (141) Q Consensus 21 ~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~gkvRrak 100 (141) +|+|+|||||+|++++.|| |+|+|.|+|+||+++++|+++||||||+++|+|||++||||||+|++|||+++|+||||| T Consensus 1 iP~f~~GD~v~V~~~~~e~-k~r~q~f~GvvI~~~~~g~~stftlR~v~~g~GVE~~fpl~SP~I~~IeV~r~~kvrRak 79 (98) T 2ftc_K 1 IPEFYVGSILRVTTADPYA-SGKISQFLGICIQRSGRGLGATFILRNVIEGQGVEICFELYNPRVQEIQVVKLEKRLDDS 79 (98) T ss_pred CCCCCCCCEEEEEEEECCC-CEEEEEEEEEEEEEECCCCEEEEEEEEEECCCCEEEEEECCCCCCCEEEEEECCCEEEHH T ss_conf 9964799999999998888-758866899999983898705999988407964899999779983679999836276211 Q ss_pred HHHHCCCCCCEEEHHHHCC Q ss_conf 6875088841022012001 Q gi|254780715|r 101 LYYLQDLRGKAARIKENTG 119 (141) Q Consensus 101 LyYLR~~~gk~arik~~~~ 119 (141) ||||||+.+++|+|.+.|+ T Consensus 80 LyYLRd~~~~~s~i~~~~~ 98 (98) T 2ftc_K 80 LLYLRDALPEYSTFDVNMK 98 (98) T ss_pred HHHHHCCCCCCCCEECCCC T ss_conf 0104438864443102359 No 6 >1zq1_A Glutamyl-tRNA(Gln) amidotransferase subunit D; X-RAY, 3D structure, asparaginase 1 family, GATD subfamily, lyase; 3.00A {Pyrococcus abyssi} SCOP: b.38.3.1 c.88.1.1 Probab=81.50 E-value=1.9 Score=22.11 Aligned_cols=63 Identities=24% Similarity=0.373 Sum_probs=35.1 Q ss_pred CCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEECCH Q ss_conf 378998999999835887740123453543136666433886300356130289991078610122200020 Q gi|254780715|r 24 FSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGK 95 (141) Q Consensus 24 f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~gk 95 (141) +.+||.|+|... ..+.+ ..|+|+++-....+-...++| |..+|. -.-|+.- .|++||++..++ T Consensus 12 ~~~gd~v~~~~~-~~~~~---~~~~g~~~~~~~~~~~~~~~~-kl~~gy--n~~~~~~--~~~~~~~~~~~~ 74 (438) T 1zq1_A 12 INVGDFVRITKE-EDGEE---VTYEGYIMPPYELSAGDTLVL-KLENGY--NIGIALE--KIRRIEVLERAK 74 (438) T ss_dssp CCTTCEEEEEEE-SSSSE---EECCEEECCCCTTCCCSEEEE-EETTSC--EEEEEGG--GEEEEEEEECCC T ss_pred CCCCCEEEEEEE-CCCCC---EEEEEEECCCCCCCCCCEEEE-ECCCCC--EEEEEHH--HCEEEEEECCCC T ss_conf 899987999992-48884---589999758755689998999-916881--0652578--834899952578 No 7 >3m4w_A Sigma-E factor regulatory protein RSEB; RSEA, RSEB, RSEP, stress response, sigma factor, periplasm, membrane, transmembrane; 2.30A {Escherichia coli} PDB: 2p4b_A 2v43_A 2v42_A Probab=74.00 E-value=4.7 Score=19.69 Aligned_cols=51 Identities=20% Similarity=0.234 Sum_probs=42.8 Q ss_pred CCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEECCH Q ss_conf 740123453543136666433886300356130289991078610122200020 Q gi|254780715|r 42 SRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGK 95 (141) Q Consensus 42 ~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~gk 95 (141) .|.+.|+|+.+-.++..+.+.=.+.-+.+|...|+.-.|..|.. |++|++. T Consensus 15 ~~~lnY~g~fv~~~~~~~~s~ri~H~~~~~~e~erl~~LdG~~r---evir~~~ 65 (295) T 3m4w_A 15 SQSLNYELSFISINKQGVESLRYRHARLDNRPLAQLLQMDGPRR---EVVQRGN 65 (295) T ss_dssp HHHSEEEEEEEEEETTEEEEEEEEEEECSSSEEEEEEECSSSCC---EEEEETT T ss_pred HHHCCEEEEEEEECCCCEEEEEEEEEEECCEEEEEEEECCCCCE---EEEEECC T ss_conf 87578349999990990778999999809969999995599942---8999799 No 8 >2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=69.73 E-value=5.9 Score=19.08 Aligned_cols=50 Identities=24% Similarity=0.317 Sum_probs=32.8 Q ss_pred CCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECC Q ss_conf 8973789989999998358877401234535431366664338863003561302899910 Q gi|254780715|r 21 LPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLY 81 (141) Q Consensus 21 ~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~ 81 (141) -..|.|||+|.| .+|.-. ...|.+++..+ ..+|++---.+.+-...||.. T Consensus 5 ~~~F~~GD~VeV----~~GEl~---~l~G~V~~v~~----d~Vti~p~~~~L~~~l~fp~~ 54 (59) T 2e6z_A 5 SSGFQPGDNVEV----CEGELI---NLQGKILSVDG----NKITIMPKHEDLKDMLEFPAQ 54 (59) T ss_dssp CSSCCTTSEEEE----CSSTTT---TCEEEECCCBT----TEEEEEECCSSCCSCEEEETT T ss_pred CCCCCCCCEEEE----ECCEEC---CCEEEEEEECC----CEEEEEECCCCCCCCEEECHH T ss_conf 365499998999----226763---77999999729----999997774035850760789 No 9 >1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4 Probab=66.39 E-value=6.3 Score=18.90 Aligned_cols=36 Identities=19% Similarity=0.302 Sum_probs=23.9 Q ss_pred CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEE Q ss_conf 7378998999999835887740123453543136666433886 Q gi|254780715|r 23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTV 65 (141) Q Consensus 23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftv 65 (141) +|.+||.|+| .+|. .+-|+|.+.......-..+..| T Consensus 4 ~F~~Gd~V~V----~~Gp---F~g~~g~V~~i~~~~~rv~Vll 39 (58) T 1nz9_A 4 AFREGDQVRV----VSGP---FADFTGTVTEINPERGKVKVMV 39 (58) T ss_dssp SCCTTCEEEE----CSGG---GTTCEEEEEEEETTTTEEEEEE T ss_pred CCCCCCEEEE----ECCC---CCCCEEEEEEECCCCCEEEEEE T ss_conf 3069999999----0368---9998999999918899999999 No 10 >1jb7_A Telomere-binding protein alpha subunit; DNA-protein interactions, DNA hydration, sodium ION, quadruplex DNA, DNA-binding protein/DNA complex; 1.86A {Sterkiella nova} SCOP: b.40.4.3 b.40.4.3 b.40.4.3 PDB: 1kix_A 1otc_A* 2i0q_A 1ph6_A 1ph1_A 1phj_A* 1ph3_A 1pa6_A 1ph4_A 1ph7_A 1ph8_A 1ph9_A 1ph5_A* 1ph2_A* 1k8g_A Probab=66.18 E-value=5.2 Score=19.40 Aligned_cols=44 Identities=16% Similarity=0.236 Sum_probs=30.6 Q ss_pred CCCCCCC-CCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEE Q ss_conf 2798973-78998999999835887740123453543136666433886300 Q gi|254780715|r 18 KRSLPKF-SPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKI 68 (141) Q Consensus 18 k~~~P~f-~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki 68 (141) ..++|.+ .+||+|.++- + .+|.|.|=..+.-+.+-+++|.|-.- T Consensus 107 ~e~LP~V~~vGDIIrlhr-v------ki~~~~g~~q~v~~~~~~SsfaLF~~ 151 (495) T 1jb7_A 107 FEDLPIIHRAGDIIRVHR-A------TLRLYNGQRQFNANVFYSSSWALFST 151 (495) T ss_dssp GGGSCCCCEETCEEEEEE-E------EEEEETTEEEEEEETTTTCEEEEECS T ss_pred HHHCCCCCCCCCEEEEEE-E------EEEEECCEEEEEECCCCCEEEEEEEC T ss_conf 778999688898999988-8------99999886678734875067899806 No 11 >2zzd_A Thiocyanate hydrolase subunit alpha; scnase, cobalt, metalloprotein, sulfenic acid, sulfinic acid, nitrIle hydratase, carbonyl sulfide; HET: FRU TLA BGC; 1.78A {Thiobacillus thioparus} PDB: 2dd4_A 2dxb_A 2dd5_A* 2dxc_A* Probab=62.98 E-value=3.9 Score=20.24 Aligned_cols=38 Identities=21% Similarity=0.292 Sum_probs=26.8 Q ss_pred CCCCCCCCCCEEEEEEEEECCCCCCCEEE----EEEEEEECCC Q ss_conf 79897378998999999835887740123----4535431366 Q gi|254780715|r 19 RSLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCIARSGR 57 (141) Q Consensus 19 ~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F----~GvvI~~~~~ 57 (141) ..-|.|.+||.|+|.- .....-+|++.| .|++++..+. T Consensus 32 ~~~prF~vGD~Vrv~~-~~p~gHtRlP~YvRGk~G~I~~~~G~ 73 (126) T 2zzd_A 32 AGKSKFNVGDRVRIKD-LPDLFYTRTMTYTRGATGTIVRLVYE 73 (126) T ss_dssp TCSCSSCTTCEEEECC-CCCSSCCSSCGGGTTCEEEEEEEEEE T ss_pred CCCCCCCCCCEEEEEC-CCCCCCEECCHHHCCCEEEEEEEECC T ss_conf 7899347899999824-89999404767778987899997577 No 12 >3hks_A EIF-5A-2, eukaryotic translation initiation factor 5A-2; beta barrel, alternative splicing, hypusine, protein biosynthesis; 2.30A {Arabidopsis thaliana} Probab=61.29 E-value=8.6 Score=18.06 Aligned_cols=64 Identities=11% Similarity=0.153 Sum_probs=40.7 Q ss_pred CCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEE Q ss_conf 97378998999999835887740123453543136666433886300356130289991078610122200 Q gi|254780715|r 22 PKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIR 92 (141) Q Consensus 22 P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r 92 (141) -+++.|+.|.+ +|...++..|+=.--+++| +--..+.+|+++.|--+|.+||-.. .++...|-+ T Consensus 32 s~lkkG~~i~i-----dg~pc~V~~~~~skpGKhG-~A~~rik~kdi~tG~~~e~t~~s~d-~ve~~~v~~ 95 (167) T 3hks_A 32 GNIRKGGHIVI-----KNRPCKVVEVSTSKTGKHG-HAKCHFVAIDIFTAKKLEDIVPSSH-NCDVPHVNR 95 (167) T ss_dssp GGCCTTSEEEE-----TTEEEEEEEEEEECSSTTC-CCEEEEEEEETTTCCEEEEEEETTS-EEEEECCEE T ss_pred HHCCCCCEEEE-----CCEEEEEEEEEEECCCCCC-CCEEEEEEEECCCCCEEEEEECCCC-EEEEEEEEE T ss_conf 99667889999-----9999999999986787775-5179999997147957899704763-001467898 No 13 >3hht_B NitrIle hydratase beta subunit; alpha and beta proteins (A+B), lyase; 1.16A {Geobacillus pallidus} PDB: 2dpp_B 1v29_B Probab=59.01 E-value=5 Score=19.52 Aligned_cols=38 Identities=26% Similarity=0.428 Sum_probs=27.3 Q ss_pred CCCCCCCCCCEEEEEEEEECCCCCCCEEE----EEEEEEECCC Q ss_conf 79897378998999999835887740123----4535431366 Q gi|254780715|r 19 RSLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCIARSGR 57 (141) Q Consensus 19 ~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F----~GvvI~~~~~ 57 (141) ..-|.|.+||.|+|.- .....-+|+..| .|++++..+. T Consensus 137 ~~~p~F~vGd~Vrv~~-~~~~gHtR~P~Y~rg~~G~i~~~~g~ 178 (229) T 3hht_B 137 SASPRFKVGERIKTKN-IHPTGHTRFPRYARDKYGVIDEVYGA 178 (229) T ss_dssp SSCCSCCTTCEEEECC-CCCSSCCSCCGGGTTCEEEEEEEEEE T ss_pred CCCCCCCCCCEEEEEC-CCCCCCCCCHHHHCCCEEEEEEEECC T ss_conf 8898567898778842-78998500657767874699988368 No 14 >1ugp_B NitrIle hydratase beta subunit; complex, N-butyric acid, non-corrin cobalt, hydration, lyase; HET: BUA; 1.63A {Pseudonocardia thermophila} SCOP: b.34.4.4 PDB: 1ire_B 1ugq_B 1ugr_B 1ugs_B Probab=58.87 E-value=5.1 Score=19.49 Aligned_cols=38 Identities=26% Similarity=0.475 Sum_probs=26.8 Q ss_pred CCCCCCCCCCEEEEEEEEECCCCCCCEEE----EEEEEEECCC Q ss_conf 79897378998999999835887740123----4535431366 Q gi|254780715|r 19 RSLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCIARSGR 57 (141) Q Consensus 19 ~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F----~GvvI~~~~~ 57 (141) ..-|.|.+||.|+|.- .....-+|++.| .|++.+.++. T Consensus 134 ~~~p~F~vGd~Vrv~~-~~~~gHtR~P~Y~rg~~G~I~~~~g~ 175 (226) T 1ugp_B 134 DRPPKFKEGDVVRFST-ASPKGHARRARYVRGKTGTVVKHHGA 175 (226) T ss_dssp SSCCSCCTTCEEEECC-CCCSSCCCCCGGGTTCEEEEEEEEEE T ss_pred CCCCCCCCCCEEEECC-CCCCCCEECCHHHCCCEEEEEEEEEC T ss_conf 8998478999899787-89988201736667875699998506 No 15 >1bkb_A Translation initiation factor 5A; 1.75A {Pyrobaculum aerophilum} SCOP: b.34.5.2 b.40.4.5 Probab=50.66 E-value=13 Score=16.97 Aligned_cols=63 Identities=13% Similarity=0.286 Sum_probs=37.5 Q ss_pred CCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCC-CC-CCEEEEEEECCCCCCEEEEECCCCCEEEEEEEE Q ss_conf 8973789989999998358877401234535431366-66-433886300356130289991078610122200 Q gi|254780715|r 21 LPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGR-GI-NKNFTVRKISYGEGMNRLFPLYSPMIQDITVIR 92 (141) Q Consensus 21 ~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~-G~-~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r 92 (141) .-+++.|++|.+ +|...++--++=. +-++ |- -..+.+|++..|--+|.+|+...+ ++...+-+ T Consensus 11 a~~lkkG~~i~~-----dg~p~~V~~~~~~---kpGk~G~a~~~~k~k~l~tG~~~e~~~~~~e~-ve~~~v~~ 75 (136) T 1bkb_A 11 AGELKEGSYVVI-----DGEPCRVVEIEKS---KTGKHGSAKARIVAVGVFDGGKRTLSLPVDAQ-VEVPIIEK 75 (136) T ss_dssp GGGCCTTCEEEE-----TTEEEEEEEEEEE---CCSTTSCCEEEEEEEETTTCCEEEEEEETTSE-EEECCCEE T ss_pred HHHCCCCCEEEE-----CCEEEEEEEEEEE---CCCCCCCEEEEEEEEECCCCCEEEEEECCCCE-EEEEEEEE T ss_conf 999756889999-----9999999999988---58877743899999982589699998138758-82404844 No 16 >3esi_A Uncharacterized protein; protein from erwinia carotovora subsp. atroseptica (pectobacterium atrosepticum), structural genomics; 2.50A {Pectobacterium atrosepticum} Probab=49.37 E-value=13 Score=16.84 Aligned_cols=42 Identities=14% Similarity=0.203 Sum_probs=28.9 Q ss_pred CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEE Q ss_conf 73789989999998358877401234535431366664338863 Q gi|254780715|r 23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVR 66 (141) Q Consensus 23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvR 66 (141) .+.|||++.+.+.+.. .+.++ .|...|....+.-+-++-+++ T Consensus 77 ~V~Pgd~l~i~~~~~~-~~~~l-~f~~~~~~~dg~~~~asG~l~ 118 (129) T 3esi_A 77 PILPGKTLRLVLIWHA-GKQSL-TFSYSILEGDTERTASSGKIK 118 (129) T ss_dssp CCCTTCEEEEEEEEET-TTTEE-EEEEEEEETTEEEEEEEEEEE T ss_pred CCCCCCEEEEEEEEEE-CCCCE-EEEEEEEECCCCEEEEEEEEE T ss_conf 3099999999999995-58708-999999972499999999999 No 17 >1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ... Probab=44.18 E-value=16 Score=16.34 Aligned_cols=74 Identities=20% Similarity=0.233 Sum_probs=39.0 Q ss_pred HCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCC---CCEEEEEEECCCCCCEEEEECCCCCEEEEEEEEC Q ss_conf 0279897378998999999835887740123453543136666---4338863003561302899910786101222000 Q gi|254780715|r 17 SKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGI---NKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRR 93 (141) Q Consensus 17 ~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~---~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~ 93 (141) ..+++| ++.||+|.| +.-..|+ =+|-|+.+....- =..+++.+ .-|-+.-+|+|..++.=++..-. T Consensus 37 g~R~~~-IkkGD~V~V---i~Gk~KG----k~GkV~~V~~k~~rV~Vegvn~~k---~~~k~~~~pIh~SNV~i~~~~~~ 105 (120) T 1vq8_T 37 GQRNVR-VNAGDTVEV---LRGDFAG----EEGEVINVDLDKAVIHVEDVTLEK---TDGEEVPRPLDTSNVRVTDLDLE 105 (120) T ss_dssp TCSEEE-CCTTCEEEE---CSSTTTT----CEEEEEEEETTTTEEEETTCEEEC---SSSCEEECCBCGGGEEEEECCCC T ss_pred CCCCCC-EECCCEEEE---EECCCCC----CCCEEEEEECCCCEEEEECCEEEE---CCCCEEECCCCHHHEEEEECCCC T ss_conf 985331-507999999---5667699----753299998679999994828995---58977864346488899847678 Q ss_pred CHHHHHHH Q ss_conf 20467876 Q gi|254780715|r 94 GKVRRSKL 101 (141) Q Consensus 94 gkvRrakL 101 (141) ...|.++| T Consensus 106 ~~~R~~~l 113 (120) T 1vq8_T 106 DEKREARL 113 (120) T ss_dssp CHHHHHHH T ss_pred CCHHHHHH T ss_conf 70476676 No 18 >1iz6_A Initiation factor 5A; SH3-like barrel, OB fold, biosynthetic protein; 2.00A {Pyrococcus horikoshii OT3} SCOP: b.34.5.2 b.40.4.5 Probab=43.31 E-value=17 Score=16.25 Aligned_cols=65 Identities=15% Similarity=0.261 Sum_probs=38.2 Q ss_pred CCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCC-CC-CCEEEEEEECCCCCCEEEEECCCCCEEEEEEEEC Q ss_conf 98973789989999998358877401234535431366-66-4338863003561302899910786101222000 Q gi|254780715|r 20 SLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGR-GI-NKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRR 93 (141) Q Consensus 20 ~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~-G~-~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~ 93 (141) +.-++++|.++.+ +|...++--++= .+-++ |- -..+.+||+..|--+|.+|+... .++...+-++ T Consensus 8 ~~~~lk~G~~i~~-----~g~p~~V~~~~~---~kpGk~G~a~~~~k~knl~tG~~~e~~~~~~e-~ve~~~v~~~ 74 (138) T 1iz6_A 8 QVSKLKPGRYIII-----DDEPCRIVNITV---SSPGKHGSAKARIEAVGIFDGKVRSIVKPTSA-EVDVPIIDKK 74 (138) T ss_dssp EGGGCCTTSEEEE-----TTEEEEEEEEEE---CCCCTTSCCEEEEEEEETTTCCEEEEEEETTS-EEEEECCEEE T ss_pred EHHHCCCCCEEEE-----CCEEEEEEEEEE---ECCCCCCCEEEEEEEEECCCCCEEEEEEECCC-CCCCCEEEEE T ss_conf 9889746899999-----999999999998---86987864189999998267968999982788-4210147667 No 19 >1u1z_A (3R)-hydroxymyristoyl-[acyl carrier protein] dehydratase; fatty acid biosynthesis, hot DOG fold, lyase; 2.50A {Pseudomonas aeruginosa} SCOP: d.38.1.6 Probab=40.46 E-value=18 Score=15.98 Aligned_cols=30 Identities=20% Similarity=0.268 Sum_probs=21.6 Q ss_pred CCCCCCEEEEEEEEECCCCCCCEEEEEEEEE Q ss_conf 7378998999999835887740123453543 Q gi|254780715|r 23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIA 53 (141) Q Consensus 23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~ 53 (141) .+.|||++.+..++.. .+..+-.|+|.+.- T Consensus 120 ~V~PGd~L~i~~~i~~-~~~~~~~~~g~~~V 149 (168) T 1u1z_A 120 PVLPGDQLQLHAKFIS-VKRSIWKFDCHATV 149 (168) T ss_dssp CCCTTCEEEEEEEEEE-EETTEEEEEEEEEE T ss_pred CCCCCCEEEEEEEEEE-EECCEEEEEEEEEE T ss_conf 5599999999999999-75999999999999 No 20 >3a8g_B NitrIle hydratase subunit beta; Fe, iron, lyase, metal-binding, oxidation; 1.11A {Rhodococcus erythropolis} PDB: 2ahj_B 2cyz_B* 2cz0_B 2cz6_B 2cz7_B 2d0q_B 2cz1_B 2zcf_B 2zpb_B 2zpe_B 2zpf_B 2zpg_B 2zph_B 2zpi_B 2qdy_B 3a8h_B 3a8l_B 3a8o_B 3a8m_B 1ahj_B Probab=35.20 E-value=12 Score=17.09 Aligned_cols=32 Identities=22% Similarity=0.286 Sum_probs=22.1 Q ss_pred CCCCCCCCCEEEEEEEEECCCCCCCEEE----EEEEE Q ss_conf 9897378998999999835887740123----45354 Q gi|254780715|r 20 SLPKFSPGDTLCVKTIITEGDKSRIQAY----EGVCI 52 (141) Q Consensus 20 ~~P~f~~GD~v~V~~~i~eg~k~R~Q~F----~GvvI 52 (141) +-|.|.+||.|+|.- .....-+|+..| .|++. T Consensus 119 ~~p~F~vGd~Vrv~~-~~~~gHtRlP~Y~rgk~G~I~ 154 (212) T 3a8g_B 119 ETTTFEVGQRVRVRD-EYVPGHIRMPAYCRGRVGTIS 154 (212) T ss_dssp CCCCCCTTCEEEECC-CCCSSCCSCCGGGTTCEEEEE T ss_pred CCCCCCCCCEEEECC-CCCCCCEECCHHHCCCEEEEE T ss_conf 898679999899754-899983016166668747998 No 21 >2equ_A PHD finger protein 20-like 1; tudor domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=34.11 E-value=23 Score=15.35 Aligned_cols=50 Identities=24% Similarity=0.232 Sum_probs=32.4 Q ss_pred CCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEEC Q ss_conf 279897378998999999835887740123453543136666433886300356130289991 Q gi|254780715|r 18 KRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPL 80 (141) Q Consensus 18 k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl 80 (141) ....++|++||.|...+ .. . +.|.|.+.+....| +|+|.= .+ |-+.+.+. T Consensus 4 ~~s~~~~~vGd~v~Arw--sD-~----~~Y~a~I~~~~~~~---~y~V~f-dD--G~~e~V~~ 53 (74) T 2equ_A 4 GSSGFDFKAGEEVLARW--TD-C----RYYPAKIEAINKEG---TFTVQF-YD--GVIRCLKR 53 (74) T ss_dssp CCSCCCCCTTCEEEEEC--SS-S----SEEEEEEEEESTTS---SEEEEE-TT--SCEEEECG T ss_pred CCCCCCCCCCCEEEEEC--CC-C----CEEEEEEEEECCCC---EEEEEE-EC--CCEEEEEH T ss_conf 87776678799999997--99-9----49989999987899---799999-66--99999708 No 22 >2wwb_L 60S ribosomal protein L26-A; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_L 2ww9_L 1s1i_U Probab=31.08 E-value=26 Score=15.03 Aligned_cols=73 Identities=18% Similarity=0.161 Sum_probs=38.4 Q ss_pred HCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEE--CCCCCCEEEEECCCCCEEEEEEEECC Q ss_conf 0279897378998999999835887740123453543136666433886300--35613028999107861012220002 Q gi|254780715|r 17 SKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKI--SYGEGMNRLFPLYSPMIQDITVIRRG 94 (141) Q Consensus 17 ~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki--~~g~GVE~~fpl~SP~i~~Iev~r~g 94 (141) ..+.+| ++.||+|.| +.-..|+ -+|.|+++.... ...+|-.+ .-.-|-+.-.|+|..++.=++. ... T Consensus 44 ~~rs~~-IrkGD~V~V---i~G~~KG----k~GkV~~V~~~~--~kV~VEgvn~~K~~~k~~~~pIh~SNV~i~~~-~~d 112 (127) T 2wwb_L 44 GIKALP-IRRDDEVLV---VRGSKKG----QEGKISSVYRLK--FAVQVDKVTKEKVNGASVPINLHPSKLVITKL-HLD 112 (127) T ss_dssp SCSEEE-CCTTSEEEE---CSSSSTT----CEEEEEEEETTT--TEEEESSCCCCBTTTBCCCCCBCGGGEEEEEC-CCC T ss_pred CCCCCE-EECCCEEEE---EECCCCC----CCCEEEEEECCC--CEEEEECEEEEECCCCCEECCCCCHHEEEEEC-CCC T ss_conf 884110-607999999---7743489----413699998779--99999183899638982427776356799936-789 Q ss_pred HHHHHH Q ss_conf 046787 Q gi|254780715|r 95 KVRRSK 100 (141) Q Consensus 95 kvRrak 100 (141) +.|++. T Consensus 113 k~rk~~ 118 (127) T 2wwb_L 113 KDRKAL 118 (127) T ss_dssp HHHHHH T ss_pred CHHHHH T ss_conf 127766 No 23 >2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster} Probab=30.72 E-value=26 Score=14.99 Aligned_cols=60 Identities=17% Similarity=0.202 Sum_probs=40.2 Q ss_pred CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEEC-CCCCCEEEE---ECCCCCEEEEEEEE Q ss_conf 73789989999998358877401234535431366664338863003-561302899---91078610122200 Q gi|254780715|r 23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKIS-YGEGMNRLF---PLYSPMIQDITVIR 92 (141) Q Consensus 23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~-~g~GVE~~f---pl~SP~i~~Iev~r 92 (141) +=.+|..|.++- .+ -+-.|+|.+.+.. ..++||+|.+ +|+..-..| -|-.-.|+++++++ T Consensus 8 e~~IG~~VSi~C--~d----~lgvyQG~I~~vs----~q~Itl~~af~NGvPlk~~~~eVTLsa~DI~~LkiI~ 71 (103) T 2rm4_A 8 QDWIGCAVSIAC--DE----VLGVFQGLIKQIS----AEEITIVRAFRNGVPLRKQNAEVVLKCTDIRSIDLIE 71 (103) T ss_dssp GGGTTCEEEEEE--CT----TTCEEEEEEEEEE----TTEEEEEEEEETTEECSCSSSCEEEETTTEEEEEEEE T ss_pred CCCEEEEEEEEE--CC----CCCEEEEEEEEEC----CCEEEEEEHHHCCCCCCCCCCEEEEEHHHCCCCEEEE T ss_conf 250207999997--79----8737878999843----4448973232478765568834898824321102652 No 24 >2jvv_A Transcription antitermination protein NUSG; transcription factor, transcription regulation, transcription termination; NMR {Escherichia coli} PDB: 2k06_A 2kvq_G Probab=30.47 E-value=26 Score=14.97 Aligned_cols=10 Identities=40% Similarity=0.813 Sum_probs=4.4 Q ss_pred CCCCCCEEEE Q ss_conf 7378998999 Q gi|254780715|r 23 KFSPGDTLCV 32 (141) Q Consensus 23 ~f~~GD~v~V 32 (141) .|.+||.|+| T Consensus 127 ~~~~Gd~V~I 136 (181) T 2jvv_A 127 LFEPGEMVRV 136 (181) T ss_dssp CCCTTEEEEE T ss_pred CCCCCCEEEE T ss_conf 1007988999 No 25 >2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Probab=27.96 E-value=29 Score=14.70 Aligned_cols=75 Identities=15% Similarity=0.185 Sum_probs=45.3 Q ss_pred HHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEE-EEEEEECCCCCCCEEEEEEEC--CCCCCEEEEECCCCCEEEEEEEE Q ss_conf 602798973789989999998358877401234-535431366664338863003--56130289991078610122200 Q gi|254780715|r 16 ESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYE-GVCIARSGRGINKNFTVRKIS--YGEGMNRLFPLYSPMIQDITVIR 92 (141) Q Consensus 16 ~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~-GvvI~~~~~G~~stftvRki~--~g~GVE~~fpl~SP~i~~Iev~r 92 (141) +..+.+| ++.||+|.| .-|+-.- -+ |-|..+... +..+.|-.+. ---|-+.-+|+|..++.=+++. T Consensus 42 y~vRs~p-VrkgD~V~V----~RG~fkG---~e~GKV~~V~~k--~~~I~VEgvt~~K~dG~~v~~pIhpSnv~ItkL~- 110 (145) T 2zkr_t 42 YNVRSMP-IRKDDEVQV----VRGHYKG---QQIGKVVQVYRK--KYVIYIERVQREKANGTTVHVGIHPSKVVITRLK- 110 (145) T ss_dssp -CC-CCB-CCTTCEEEE----CSSTTTT---CCSEEEEEEETT--TTEEEETTCEEECSSCCEEECCBCGGGEEECC-C- T ss_pred CCCCCEE-ECCCCEEEE----EECCCCC---CCCCEEEEEEEC--CCEEEECCEEEECCCCCEEECCCCCCCEEEEEEC- T ss_conf 3975120-136999999----7279788---768679999807--5199975668982699776135275106999862- Q ss_pred CCHHHHHHH Q ss_conf 020467876 Q gi|254780715|r 93 RGKVRRSKL 101 (141) Q Consensus 93 ~gkvRrakL 101 (141) ..+.|++.| T Consensus 111 lDk~Rk~~L 119 (145) T 2zkr_t 111 LDKDRKKIL 119 (145) T ss_dssp CCHHHHHHH T ss_pred CCHHHHHHH T ss_conf 681689986 No 26 >2fhd_A RAD9 homolog, DNA repair protein RHP9/CRB2; tamdem tudor domains, cell cycle; HET: DNA MSE PO4; 2.40A {Schizosaccharomyces pombe} Probab=27.73 E-value=22 Score=15.53 Aligned_cols=11 Identities=18% Similarity=0.126 Sum_probs=9.3 Q ss_pred CCCCCCCEEEE Q ss_conf 97378998999 Q gi|254780715|r 22 PKFSPGDTLCV 32 (141) Q Consensus 22 P~f~~GD~v~V 32 (141) -++++||+|+| T Consensus 62 LeLRiGD~VKV 72 (153) T 2fhd_A 62 FFLKKGDVVQS 72 (153) T ss_dssp SCCCTTCEEEE T ss_pred CCCCCCCEEEE T ss_conf 02236987885 No 27 >1qzg_A Protection of telomeres protein 1; protrein-DNA complex, single-stranded telomeric DNA, DNA binding protein/DNA complex; HET: TMP; 1.90A {Schizosaccharomyces pombe} SCOP: b.40.4.3 PDB: 1qzh_A Probab=26.94 E-value=30 Score=14.58 Aligned_cols=29 Identities=14% Similarity=0.160 Sum_probs=12.2 Q ss_pred CCCEEEEEEEC---CCCCCEEEEECCCCCEEEEE Q ss_conf 64338863003---56130289991078610122 Q gi|254780715|r 59 INKNFTVRKIS---YGEGMNRLFPLYSPMIQDIT 89 (141) Q Consensus 59 ~~stftvRki~---~g~GVE~~fpl~SP~i~~Ie 89 (141) --+||+|=.-+ .+.|+. ..+|+|..+.+- T Consensus 67 y~~tl~I~D~S~~~~~~gL~--v~iF~~~~e~LP 98 (187) T 1qzg_A 67 WVTTVYLWDPTCDTSSIGLQ--IHLFSKQGNDLP 98 (187) T ss_dssp EEEEEEEECTTSCTTSCCEE--EEEEESSSSCSC T ss_pred EEEEEEEECCCCCCCCCCEE--EEEECCCHHHCC T ss_conf 79999998599888888679--999899967889 No 28 >3cpf_A Eukaryotic translation initiation factor 5A-1; structural genomics consortium, leukemia, apoptosis, SGC, acetylation, alternative splicing; 2.50A {Homo sapiens} Probab=25.72 E-value=32 Score=14.44 Aligned_cols=59 Identities=14% Similarity=0.183 Sum_probs=36.3 Q ss_pred CCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCC---C-CCEEEEEEECCCCCCEEEEECCCCCEEEEEEE Q ss_conf 9737899899999983588774012345354313666---6-43388630035613028999107861012220 Q gi|254780715|r 22 PKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRG---I-NKNFTVRKISYGEGMNRLFPLYSPMIQDITVI 91 (141) Q Consensus 22 P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G---~-~stftvRki~~g~GVE~~fpl~SP~i~~Iev~ 91 (141) -+++.|+.|.+ +|....+ +-+.....| - -..+.+||+..|--+|.+|+... .++...+- T Consensus 10 s~lkkG~~i~~-----~G~p~~V-----~~~~~~kpgk~G~a~v~~k~knl~tG~~~e~t~~~~d-~ve~~~v~ 72 (138) T 3cpf_A 10 SALRKNGFVVL-----KGRPCKI-----VEMSTSKTGKHGHAKVHLVGIDIFTGKKYEDICPSTH-NMDVPNIK 72 (138) T ss_dssp GGCCTTSEEEE-----TTEEEEE-----EEEEEECC----CCEEEEEEEETTTCCEEEEEEETTS-EEEEECCE T ss_pred HHCCCCCEEEE-----CCEEEEE-----EEEEEECCCCCCCEEEEEEEEECCCCCEEEEEECCCC-EEEEEEEE T ss_conf 99767899999-----9999999-----9999986867876699999999789999999856996-99877899 No 29 >2eif_A IF-5A, protein (eukaryotic translation initiation factor 5A); EIF-5A, OB-fold, structural genomics; 1.80A {Methanocaldococcus jannaschii DSM2661} SCOP: b.34.5.2 b.40.4.5 PDB: 1eif_A Probab=24.79 E-value=33 Score=14.33 Aligned_cols=66 Identities=14% Similarity=0.088 Sum_probs=38.0 Q ss_pred CCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEE Q ss_conf 9897378998999999835887740123453543136666433886300356130289991078610122200 Q gi|254780715|r 20 SLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIR 92 (141) Q Consensus 20 ~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r 92 (141) +.-+++.|.++.+ +|...++-.++=.--.+++ +--..+.+||+..|.-+|.+|+... .++...+-+ T Consensus 12 ~~~~lrkG~~i~~-----~g~p~~V~~~~~~k~GkrG-~a~~~~k~knl~tG~~~e~~~~~~e-kve~~~ie~ 77 (136) T 2eif_A 12 NVGSLKVGQYVMI-----DGVPCEIVDISVSKPGKHG-GAKARVVGIGIFEKVKKEFVAPTSS-KVEVPIIDR 77 (136) T ss_dssp EGGGCCTTSEEEE-----TTEEEEEEEEEECCCCSSS-CCEEEEEEEESSSCCEEEEEEETTS-EEEEECEEE T ss_pred EHHHCCCCCEEEE-----CCEEEEEEEEEEECCCCCC-CCEEEEEEEECCCCCEEEEEEECCC-CEECCCEEE T ss_conf 6999656899999-----9998999999998688886-4089999999368969999981897-000353666 No 30 >1dj7_B Ferredoxin thioredoxin reductase: variable chain; 4Fe-4S cluster binding fold with CXCX16CXCX8CXC binding motif, electron transport; 1.60A {Synechocystis SP} SCOP: b.34.4.3 PDB: 2pu9_B 2pvo_B 2puo_B 2puk_B 2pvd_B 2pvg_B Probab=23.68 E-value=31 Score=14.52 Aligned_cols=42 Identities=29% Similarity=0.433 Sum_probs=24.7 Q ss_pred CCCCCEEEEEEEEEC--CCCCCCEEE-----EEEEEEE----CCCCCCCEEEE Q ss_conf 378998999999835--887740123-----4535431----36666433886 Q gi|254780715|r 24 FSPGDTLCVKTIITE--GDKSRIQAY-----EGVCIAR----SGRGINKNFTV 65 (141) Q Consensus 24 f~~GD~v~V~~~i~e--g~k~R~Q~F-----~GvvI~~----~~~G~~stftv 65 (141) .++||-|+|...+.= ..+-|-|.| +|.+.+. +|+-+++|+-+ T Consensus 1 mkvGdrVrV~~sv~VyhhP~hr~~~fDl~G~eGeV~~~v~~wkGr~ISanlP~ 53 (75) T 1dj7_B 1 MNVGDRVRVTSSVVVYHHPEHKKTAFDLQGMEGEVAAVLTEWQGRPISANLPV 53 (75) T ss_dssp CCTTCEEEECSCCEESCCTTSTTSCEECTTCEEEEEEECSEETTEECCCSSCE T ss_pred CCCCCEEEEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCEECCCCCE T ss_conf 98899999800189984876579884568877777678731379695699769 No 31 >1hr0_W Translation initiation factor; ribosomal subunit, ribosome, IF1; 3.20A {Escherichia coli} SCOP: b.40.4.5 PDB: 1zo1_W Probab=23.03 E-value=21 Score=15.56 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=12.0 Q ss_pred CCCCCCEEEEEEEEECCCCCCC Q ss_conf 7378998999999835887740 Q gi|254780715|r 23 KFSPGDTLCVKTIITEGDKSRI 44 (141) Q Consensus 23 ~f~~GD~v~V~~~i~eg~k~R~ 44 (141) -+.+||.|.|.++-.+-+|.|+ T Consensus 46 ~I~~GD~V~Vel~~yd~~kgrI 67 (71) T 1hr0_W 46 RILPGDRVVVEITPYDPTRGRI 67 (71) T ss_dssp CCCTTCEEEEECCTTCTTCCEE T ss_pred EECCCCEEEEEECCCCCCCEEE T ss_conf 8369999999967667993868 No 32 >2d6f_A Glutamyl-tRNA(Gln) amidotransferase subunit D; ligase, ligase/RNA complex; 3.15A {Methanothermobacterthermautotrophicus} SCOP: b.38.3.1 c.88.1.1 Probab=21.31 E-value=39 Score=13.90 Aligned_cols=59 Identities=22% Similarity=0.430 Sum_probs=31.7 Q ss_pred CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEEEEECCH Q ss_conf 7378998999999835887740123453543136666433886300356130289991078610122200020 Q gi|254780715|r 23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGK 95 (141) Q Consensus 23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki~~g~GVE~~fpl~SP~i~~Iev~r~gk 95 (141) .+.+||.|+|.. + + ..|+|+++-....+-...++| |.-+|. -.-|+.-. + +|+++..++ T Consensus 15 ~~~~g~~v~~~~---~-~----~~~~g~~~p~~~~~~~~~~~~-kl~~gy--n~~~~~~~--~-~~~~~~~~~ 73 (435) T 2d6f_A 15 SIDVGDMVLVEK---P-D----VTYEGMVLDRADDADDRHIVL-KLENGY--NIGVEISD--A-RIELLEKGS 73 (435) T ss_dssp TCCTTCEEEEEC---S-S----CEEEEEECCCCTTSCSSEEEE-ECTTSC--EEEEECTT--C-CCCEEECCC T ss_pred CCCCCCEEEEEE---C-C----EEEEEEEECCCCCCCCCEEEE-ECCCCC--EEEEECCC--C-EEEEEECCC T ss_conf 989998899997---9-9----699999957866789988999-936870--16531110--1-799985377 No 33 >3gb3_A Killerred; fluorescent protein, genetically encoded photosensitizer, phototoxicity; HET: CRQ; 1.75A {Anthomedusae SP} PDB: 3gl4_A* 2wiq_A* 2wis_A* 3a8s_A* Probab=20.93 E-value=25 Score=15.09 Aligned_cols=44 Identities=18% Similarity=0.313 Sum_probs=23.5 Q ss_pred CCCEEEE--EEEEEECCCCC-CCEEEEEEECCCCCCEEEEECCCCCEEEEE Q ss_conf 7401234--53543136666-433886300356130289991078610122 Q gi|254780715|r 42 SRIQAYE--GVCIARSGRGI-NKNFTVRKISYGEGMNRLFPLYSPMIQDIT 89 (141) Q Consensus 42 ~R~Q~F~--GvvI~~~~~G~-~stftvRki~~g~GVE~~fpl~SP~i~~Ie 89 (141) +|+-.|| |+|.+...-.+ +..|.-+--+.|++ ||-.+|..++-. T Consensus 91 eRt~~fEDGGv~t~~~~isleg~~~~~~v~~~G~n----FP~nGPVMqkkt 137 (235) T 3gb3_A 91 DRTVRFENDGTMTSHHTYELDDTCVVSRITVNCDG----FQPDGPIMRDQL 137 (235) T ss_dssp EEEEEETTSCEEEEEEEEEEETTEEEEEEEEEEES----CCTTSTTTTTCE T ss_pred EEEEEECCCCEEEEEEEEEEECCEEEEEEEEEEEC----CCCCCCCCCCCC T ss_conf 99899778969999888998699999999999878----899997433543 No 34 >2eyx_A V-CRK sarcoma virus CT10 oncogene homolog isoform A; SH3, signaling protein; NMR {Homo sapiens} Probab=20.61 E-value=37 Score=14.07 Aligned_cols=24 Identities=25% Similarity=0.466 Sum_probs=15.3 Q ss_pred CCCCCCCEEEEEEEEECCCCCCCEEEEEEE Q ss_conf 973789989999998358877401234535 Q gi|254780715|r 22 PKFSPGDTLCVKTIITEGDKSRIQAYEGVC 51 (141) Q Consensus 22 P~f~~GD~v~V~~~i~eg~k~R~Q~F~Gvv 51 (141) -.|+.||+|.|.....+ . -..|.| T Consensus 25 L~f~~GDvi~V~~~~~~-g-----Ww~G~~ 48 (67) T 2eyx_A 25 LALEVGELVKVTKINVS-G-----QWEGEC 48 (67) T ss_dssp CCBCSSEEEEEEEECTT-S-----EEEEEE T ss_pred CCCCCCCEEEEEEECCC-C-----EEEEEE T ss_conf 67889999999897589-9-----799998 No 35 >2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5 Probab=20.12 E-value=41 Score=13.75 Aligned_cols=28 Identities=25% Similarity=0.412 Sum_probs=20.5 Q ss_pred CCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCC Q ss_conf 73789989999998358877401234535431366 Q gi|254780715|r 23 KFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGR 57 (141) Q Consensus 23 ~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~ 57 (141) .|++||-|+| ..| +.+--.|+|+...+. T Consensus 17 ~F~~GDHVkV----i~G---~~~GetGlVV~v~~~ 44 (69) T 2do3_A 17 YFKMGDHVKV----IAG---RFEGDTGLIVRVEEN 44 (69) T ss_dssp SCCTTCEEEE----SSS---TTTTCEEEEEEECSS T ss_pred ECCCCCEEEE----ECC---EECCCCEEEEEEECC T ss_conf 1349983899----065---686975799999699 Done!