Query gi|255764512|ref|YP_003065529.2| preprotein tranlocase protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 108 No_of_seqs 116 out of 1133 Neff 5.6 Searched_HMMs 23785 Date Wed Jun 1 01:06:51 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 255764512.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2rdd_B UPF0092 membrane protei 99.2 5.7E-12 2.4E-16 92.7 2.3 37 19-55 1-37 (37) 2 2qf4_A Cell shape determining 85.8 1.1 4.7E-05 23.9 4.9 33 54-86 33-65 (172) 3 2j5u_A MREC protein; bacterial 80.1 3.3 0.00014 21.0 5.7 26 54-79 95-120 (255) 4 2e6z_A Transcription elongatio 74.5 2.9 0.00012 21.3 3.9 34 54-88 6-43 (59) 5 2e70_A Transcription elongatio 66.2 6.5 0.00027 19.2 4.2 44 58-102 20-68 (71) 6 1dbg_A Chondroitinase B; beta 66.0 5.2 0.00022 19.8 3.6 26 45-70 30-55 (506) 7 2do3_A Transcription elongatio 65.8 3.9 0.00016 20.5 3.0 44 51-94 13-60 (69) 8 2qqr_A JMJC domain-containing 61.6 9 0.00038 18.4 4.8 45 55-99 63-111 (118) 9 3hsb_A Protein HFQ; SM-like mo 59.0 9.9 0.00042 18.1 4.1 61 43-105 6-71 (78) 10 2vv5_A MSCS, small-conductance 55.2 11 0.00048 17.7 5.9 44 54-99 128-171 (286) 11 2oar_A Large-conductance mecha 55.0 5 0.00021 19.9 1.9 29 19-47 94-122 (174) 12 2wwb_L 60S ribosomal protein L 50.7 14 0.00057 17.3 4.2 31 55-85 49-84 (127) 13 1vq8_T 50S ribosomal protein L 50.5 14 0.00058 17.2 4.0 30 55-84 42-76 (120) 14 3h43_A Proteasome-activating n 47.5 15 0.00064 16.9 5.9 43 48-96 6-48 (85) 15 2eve_A Hypothetical protein ps 47.3 12 0.0005 17.6 2.9 28 48-76 33-66 (157) 16 2zjr_R 50S ribosomal protein L 40.8 19 0.00081 16.3 3.6 31 55-85 15-50 (115) 17 2xdp_A Lysine-specific demethy 38.4 21 0.00089 16.1 4.8 48 53-100 62-113 (123) 18 3bdl_A Staphylococcal nuclease 38.3 21 0.00089 16.1 4.8 31 68-98 209-240 (570) 19 1kq1_A HFQ, HOST factor for Q 37.5 22 0.00092 16.0 4.4 56 48-105 7-67 (77) 20 2cp6_A Restin; microtubule bin 37.2 22 0.00093 16.0 5.2 34 54-87 37-75 (172) 21 2e3i_A Restin; CAP-Gly, cytopl 33.6 22 0.00094 15.9 2.5 33 54-86 1-38 (86) 22 1nz9_A Transcription antitermi 33.5 25 0.0011 15.6 4.9 42 55-96 4-53 (58) 23 3ma8_A Pyruvate kinase; parasi 31.9 27 0.0011 15.4 4.9 42 50-92 162-204 (534) 24 2isb_A Fumarase, FUM-1; NP_069 30.3 25 0.001 15.7 2.3 21 50-70 25-45 (192) 25 2khj_A 30S ribosomal protein S 29.8 29 0.0012 15.2 4.4 41 49-96 22-62 (109) 26 2pi2_E Replication protein A 1 28.7 31 0.0013 15.1 4.8 35 58-96 42-77 (142) 27 2g3r_A Tumor suppressor P53-bi 28.6 31 0.0013 15.1 6.0 45 53-98 3-52 (123) 28 2je6_I RRP4, exosome complex R 27.1 25 0.0011 15.6 1.9 49 50-104 116-172 (251) 29 1pcq_O Groes protein; chaperon 26.1 29 0.0012 15.2 2.1 25 55-81 58-84 (97) 30 1zce_A Hypothetical protein AT 25.1 23 0.00098 15.8 1.4 27 46-72 34-65 (155) 31 1u1s_A HFQ protein; SM-like ba 24.6 36 0.0015 14.6 7.8 55 48-105 7-66 (82) 32 2equ_A PHD finger protein 20-l 23.2 39 0.0016 14.5 4.0 50 54-104 8-61 (74) 33 2f95_B Sensory rhodopsin II tr 22.8 32 0.0013 15.0 1.7 26 36-61 77-102 (163) 34 1g31_A GP31; chaperone, CO-cha 22.8 12 0.0005 17.6 -0.5 23 56-78 23-57 (111) 35 2p5d_A UPF0310 protein mjecl36 22.6 40 0.0017 14.4 3.2 16 50-65 32-47 (147) 36 1pw4_A Glycerol-3-phosphate tr 22.4 36 0.0015 14.7 2.0 11 47-57 439-449 (451) 37 3id1_A Regulator of sigma E pr 21.4 40 0.0017 14.4 2.0 19 51-69 15-33 (95) 38 2gbs_A Hypothetical protein RP 21.3 31 0.0013 15.1 1.4 30 46-76 33-67 (145) 39 3gr4_A Pyruvate kinase isozyme 21.1 43 0.0018 14.2 4.7 42 50-92 181-223 (550) 40 3hfn_A ASL2047 protein; HFQ, S 21.1 43 0.0018 14.2 3.3 38 67-105 35-72 (72) 41 1a3w_A Pyruvate kinase; allost 20.4 44 0.0019 14.1 2.1 43 50-92 131-174 (500) 42 3eop_A Thymocyte nuclear prote 20.4 33 0.0014 14.9 1.4 31 45-76 41-77 (176) 43 3ht4_A Aluminum resistance pro 20.3 44 0.0019 14.1 2.4 31 38-68 84-116 (431) 44 3c2q_A Uncharacterized conserv 20.3 44 0.0019 14.1 2.2 17 53-69 68-85 (345) No 1 >2rdd_B UPF0092 membrane protein YAJC; drug resistance, multidrug efflux, transporter, antiporter, novel transmembrane helix, ACRB, inner membrane; HET: AIC; 3.50A {Escherichia coli} Probab=99.17 E-value=5.7e-12 Score=92.68 Aligned_cols=37 Identities=22% Similarity=0.726 Sum_probs=34.9 Q ss_pred CCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH Q ss_conf 6358999999999999999606128999999999972 Q gi|255764512|r 19 SPLEMAGLFFVLAVVWYFLLIRPQRQQLQRRAEMLRN 55 (108) Q Consensus 19 ~~~~~l~~~~~~~~i~yF~~iRPq~Kr~k~~~~m~~~ 55 (108) |++++++++++++++|||++||||+||+|||++|++| T Consensus 1 S~~~~l~~~v~~f~ifYFliIRPQ~Kr~Ke~~~m~~s 37 (37) T 2rdd_B 1 SPMSLILMLVVFGLIFYFMILRPQQKRTKEHKKLMDS 37 (37) T ss_dssp CCCHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTGGGC T ss_pred CCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCC T ss_conf 9188999999999999999957017779999998709 No 2 >2qf4_A Cell shape determining protein MREC; filament A-lytic protease fold, structural protein; 1.20A {Streptococcus pneumoniae R6} PDB: 2qf5_A Probab=85.80 E-value=1.1 Score=23.88 Aligned_cols=33 Identities=12% Similarity=0.279 Sum_probs=24.9 Q ss_pred HHCCCCCEEEECCCEEEEEEEECCCCEEEEEEC Q ss_conf 720899899996841999999617968999988 Q gi|255764512|r 54 RNLRRGDSIVTAAGIVGKVVRVIDDLELEVEIA 86 (108) Q Consensus 54 ~~Lk~Gd~VvT~gGi~G~V~~i~~d~~v~ve~~ 86 (108) +.+++|+-|++..|++|+|.++..+...+.-+. T Consensus 33 ~GI~~g~~Vi~~~GlVG~V~~v~~~~S~V~lit 65 (172) T 2qf4_A 33 KGASENMLAIANGGLIGSVSKVEENSTIVNLLT 65 (172) T ss_dssp GTCCTTCEEEETTEEEEEEEEECSSCEEEEETT T ss_pred HCCCCCCEEEECCCCEEEEEEECCCEEEEEEEE T ss_conf 189889999989964899999477268999974 No 3 >2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell shape regulation; 2.5A {Listeria monocytogenes} Probab=80.08 E-value=3.3 Score=20.96 Aligned_cols=26 Identities=19% Similarity=0.360 Sum_probs=20.9 Q ss_pred HHCCCCCEEEECCCEEEEEEEECCCC Q ss_conf 72089989999684199999961796 Q gi|255764512|r 54 RNLRRGDSIVTAAGIVGKVVRVIDDL 79 (108) Q Consensus 54 ~~Lk~Gd~VvT~gGi~G~V~~i~~d~ 79 (108) +.+++|+-|++.+|++|+|.++.... T Consensus 95 dGI~~g~~Vi~~~GlVG~V~~v~~~~ 120 (255) T 2j5u_A 95 DGVKPDMAVTTPSGLIGKVTTTGAKS 120 (255) T ss_dssp GTCCTTCEEEETTEEEEEEEEECSSC T ss_pred CCCCCCCEEEECCCCEEEEEEECCCE T ss_conf 37778965884266357999964640 No 4 >2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=74.51 E-value=2.9 Score=21.33 Aligned_cols=34 Identities=15% Similarity=0.375 Sum_probs=26.0 Q ss_pred HHCCCCCEEEECC----CEEEEEEEECCCCEEEEEECCC Q ss_conf 7208998999968----4199999961796899998899 Q gi|255764512|r 54 RNLRRGDSIVTAA----GIVGKVVRVIDDLELEVEIAEN 88 (108) Q Consensus 54 ~~Lk~Gd~VvT~g----Gi~G~V~~i~~d~~v~ve~~~~ 88 (108) ++.++||.|.-.- |+.|+|+++++| .+.+...++ T Consensus 6 ~~F~~GD~VeV~~GEl~~l~G~V~~v~~d-~Vti~p~~~ 43 (59) T 2e6z_A 6 SGFQPGDNVEVCEGELINLQGKILSVDGN-KITIMPKHE 43 (59) T ss_dssp SSCCTTSEEEECSSTTTTCEEEECCCBTT-EEEEEECCS T ss_pred CCCCCCCEEEEECCEECCCEEEEEEECCC-EEEEEECCC T ss_conf 65499998999226763779999997299-999977740 No 5 >2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=66.22 E-value=6.5 Score=19.19 Aligned_cols=44 Identities=20% Similarity=0.319 Sum_probs=31.2 Q ss_pred CCCEEEEC-C---CEEEEEEEECCCCEEEEEEC-CCCEEEEEEHHHHEEC Q ss_conf 99899996-8---41999999617968999988-9979999855341004 Q gi|255764512|r 58 RGDSIVTA-A---GIVGKVVRVIDDLELEVEIA-ENVRVRVVRSFVSEVQ 102 (108) Q Consensus 58 ~Gd~VvT~-g---Gi~G~V~~i~~d~~v~ve~~-~~v~i~v~r~aI~~V~ 102 (108) .|..|.-. | |+.|.|.++.++ .+.||+. ..-.+++.|+-++-+- T Consensus 20 iGktV~I~~GpyKG~~G~Vkd~t~~-~~rVELhs~~K~V~V~r~~l~~~~ 68 (71) T 2e70_A 20 IGQTVRISQGPYKGYIGVVKDATES-TARVELHSTCQTISVDRQRLTTVG 68 (71) T ss_dssp TTSEEEECSSTTTTCEEEEEEECSS-CEEEEESSSCCEEEECTTTEEECC T ss_pred CCCEEEEEECCCCCEEEEEEECCCC-EEEEEEECCCEEEEEEHHHEECCC T ss_conf 5888899663768868999965288-799998158769998988804045 No 6 >1dbg_A Chondroitinase B; beta helix, polysaccharide lyase, dematan sulfate; HET: MAN RAM GCU MXY G4D BGC; 1.70A {Pedobacter heparinus} SCOP: b.80.1.4 PDB: 1dbo_A* 1ofl_A* 1ofm_A* Probab=65.97 E-value=5.2 Score=19.82 Aligned_cols=26 Identities=12% Similarity=0.234 Sum_probs=23.3 Q ss_pred HHHHHHHHHHHCCCCCEEEECCCEEE Q ss_conf 99999999972089989999684199 Q gi|255764512|r 45 QLQRRAEMLRNLRRGDSIVTAAGIVG 70 (108) Q Consensus 45 r~k~~~~m~~~Lk~Gd~VvT~gGi~G 70 (108) -.++.|+.++++++||.|+...|.|- T Consensus 30 ~~~tiq~Ai~~a~PGDtI~l~~G~Y~ 55 (506) T 1dbg_A 30 SNETLYQVVKEVKPGGLVQIADGTYK 55 (506) T ss_dssp SHHHHHHHHHHCCTTCEEEECSEEEE T ss_pred CHHHHHHHHHCCCCCCEEEECCCEEE T ss_conf 85899999970899999998996987 No 7 >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=65.78 E-value=3.9 Score=20.55 Aligned_cols=44 Identities=23% Similarity=0.376 Sum_probs=29.9 Q ss_pred HHHHHCCCCCEEEECCCEE----EEEEEECCCCEEEEEECCCCEEEEE Q ss_conf 9997208998999968419----9999961796899998899799998 Q gi|255764512|r 51 EMLRNLRRGDSIVTAAGIV----GKVVRVIDDLELEVEIAENVRVRVV 94 (108) Q Consensus 51 ~m~~~Lk~Gd~VvT~gGi~----G~V~~i~~d~~v~ve~~~~v~i~v~ 94 (108) +++.-.++||+|--.+|-| |.|+++.+|..+.+-...+.++++. T Consensus 13 ~LrK~F~~GDHVkVi~G~~~GetGlVV~v~~~~v~~~sD~t~~Ei~V~ 60 (69) T 2do3_A 13 ELRKYFKMGDHVKVIAGRFEGDTGLIVRVEENFVILFSDLTMHELKVL 60 (69) T ss_dssp CCCSSCCTTCEEEESSSTTTTCEEEEEEECSSCEEEEESSSCSEEEEC T ss_pred HCEEECCCCCEEEEECCEECCCCEEEEEEECCEEEEEECCCCCEEEEE T ss_conf 905513499838990656869757999996999999858998789996 No 8 >2qqr_A JMJC domain-containing histone demethylation protein 3A; histone lysine demethylase, tandem hybrid tudor domains, metal binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2qqs_A* 2gfa_A* 2gf7_A* Probab=61.56 E-value=9 Score=18.35 Aligned_cols=45 Identities=20% Similarity=0.121 Sum_probs=27.4 Q ss_pred HCCCCCEEEECC--CE--EEEEEEECCCCEEEEEECCCCEEEEEEHHHH Q ss_conf 208998999968--41--9999996179689999889979999855341 Q gi|255764512|r 55 NLRRGDSIVTAA--GI--VGKVVRVIDDLELEVEIAENVRVRVVRSFVS 99 (108) Q Consensus 55 ~Lk~Gd~VvT~g--Gi--~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI~ 99 (108) .+++|++|.-.. |- -|+|.++.++.+-.|...||.+..+.|..|. T Consensus 63 ~~~vG~~V~a~~~~~~~y~g~v~~~~~~~~Y~V~fdDG~~~~v~r~~i~ 111 (118) T 2qqr_A 63 PPAEGEVVQVRWTDGQVYGAKFVASHPIQMYQVEFEDGSQLVVKRDDVY 111 (118) T ss_dssp CCCTTCEEEEECTTSCEEEEEEEEEEEEEEEEEEETTSCEEEECGGGEE T ss_pred CCCCCCEEEEECCCCCEEEEEEEEECCCCEEEEEECCCCEEEECHHHEE T ss_conf 8477989999848982978999998268789999948998897589917 No 9 >3hsb_A Protein HFQ; SM-like motif, protein-RNA complex, RNA-binding, stress RESP binding protein-RNA complex; 2.20A {Bacillus subtilis} Probab=59.03 E-value=9.9 Score=18.08 Aligned_cols=61 Identities=15% Similarity=0.334 Sum_probs=41.9 Q ss_pred HHHHHHHHHHHHHCCCCCE---EEECCC--EEEEEEEECCCCEEEEEECCCCEEEEEEHHHHEECCCC Q ss_conf 8999999999972089989---999684--19999996179689999889979999855341004778 Q gi|255764512|r 43 RQQLQRRAEMLRNLRRGDS---IVTAAG--IVGKVVRVIDDLELEVEIAENVRVRVVRSFVSEVQSKS 105 (108) Q Consensus 43 ~Kr~k~~~~m~~~Lk~Gd~---VvT~gG--i~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI~~V~~k~ 105 (108) +|.+.=+.++++++++... |-...| +-|+|... |++++.++. +|..--+=|.||+.++|.. T Consensus 6 ~k~~nlQd~fLn~lr~~~~~VtifLvNGvkl~G~I~~f-D~ftvlL~~-~g~qqLIYKHAISTI~P~~ 71 (78) T 3hsb_A 6 MKPINIQDQFLNQIRKENTYVTVFLLNGFQLRGQVKGF-DNFTVLLES-EGKQQLIYKHAISTFAPQK 71 (78) T ss_dssp ----CHHHHHHHHHHHTTCCEEEEETTSCEEEEEEEEE-CSSEEEEEE-TTEEEEEEGGGEEEEEESS T ss_pred CCCCCHHHHHHHHHHHCCCCEEEEEECCCEEEEEEEEE-CCEEEEEEE-CCCEEEEEEEEEEEECCCC T ss_conf 67526389999999872983899996782788999988-650999982-8961799945367772575 No 10 >2vv5_A MSCS, small-conductance mechanosensitive channel; ION transport, transmembrane, inner membrane, membrane structure, membrane protein, membrane; 3.45A {Escherichia coli} SCOP: b.38.1.3 d.58.43.1 f.34.1.1 PDB: 2oau_A Probab=55.22 E-value=11 Score=17.70 Aligned_cols=44 Identities=18% Similarity=0.332 Sum_probs=33.7 Q ss_pred HHCCCCCEEEECCCEEEEEEEECCCCEEEEEECCCCEEEEEEHHHH Q ss_conf 7208998999968419999996179689999889979999855341 Q gi|255764512|r 54 RNLRRGDSIVTAAGIVGKVVRVIDDLELEVEIAENVRVRVVRSFVS 99 (108) Q Consensus 54 ~~Lk~Gd~VvT~gGi~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI~ 99 (108) ...+.||.| ..+|..|+|.+++= ....++..+|..+.+--+.+. T Consensus 128 ~pf~vGD~I-~i~~~~G~V~~I~l-r~T~i~t~dg~~v~IPNs~l~ 171 (286) T 2vv5_A 128 RPFRAGEYV-DLGGVAGTVLSVQI-FSTTMRTADGKIIVIPNGKII 171 (286) T ss_dssp CSSCTTCEE-ESSSCEEEEEEECS-SEEEEECTTSCEEEEEHHHHH T ss_pred CCCCCCCEE-EECCCEEEEEEEEE-EEEEEECCCCCEEEEECCCCC T ss_conf 770278889-97795699999333-489988799989999811001 No 11 >2oar_A Large-conductance mechanosensitive channel; stretch activated ION channel mechanosensitive, membrane protein; 3.50A {Mycobacterium tuberculosis H37RA} SCOP: f.16.1.1 Probab=54.97 E-value=5 Score=19.92 Aligned_cols=29 Identities=31% Similarity=0.450 Sum_probs=18.9 Q ss_pred CCHHHHHHHHHHHHHHHHHHCCCHHHHHH Q ss_conf 63589999999999999996061289999 Q gi|255764512|r 19 SPLEMAGLFFVLAVVWYFLLIRPQRQQLQ 47 (108) Q Consensus 19 ~~~~~l~~~~~~~~i~yF~~iRPq~Kr~k 47 (108) ..+..++-|+++..+.||++.+|-+|-++ T Consensus 94 ~Fl~aiInFlIiA~vvyFlivk~~nklk~ 122 (174) T 2oar_A 94 VLLSAAINFFLIAFAVYFLVVLPYNTLRK 122 (174) T ss_dssp HHHHHHHHHHHHHHHHHHHTHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 99999999999999999999999998622 No 12 >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=50.74 E-value=14 Score=17.26 Aligned_cols=31 Identities=26% Similarity=0.513 Sum_probs=23.6 Q ss_pred HCCCCCEEEECC----CEEEEEEEECC-CCEEEEEE Q ss_conf 208998999968----41999999617-96899998 Q gi|255764512|r 55 NLRRGDSIVTAA----GIVGKVVRVID-DLELEVEI 85 (108) Q Consensus 55 ~Lk~Gd~VvT~g----Gi~G~V~~i~~-d~~v~ve~ 85 (108) .+++||+|.-.. |--|+|.+++- +..+.||- T Consensus 49 ~IrkGD~V~Vi~G~~KGk~GkV~~V~~~~~kV~VEg 84 (127) T 2wwb_L 49 PIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDK 84 (127) T ss_dssp ECCTTSEEEECSSSSTTCEEEEEEEETTTTEEEESS T ss_pred EEECCCEEEEEECCCCCCCCEEEEEECCCCEEEEEC T ss_conf 060799999977434894136999987799999918 No 13 >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=50.48 E-value=14 Score=17.23 Aligned_cols=30 Identities=27% Similarity=0.377 Sum_probs=23.1 Q ss_pred HCCCCCEEEECCC----EEEEEEEECC-CCEEEEE Q ss_conf 2089989999684----1999999617-9689999 Q gi|255764512|r 55 NLRRGDSIVTAAG----IVGKVVRVID-DLELEVE 84 (108) Q Consensus 55 ~Lk~Gd~VvT~gG----i~G~V~~i~~-d~~v~ve 84 (108) .+++||+|.-.+| --|+|.+++- +..+.|| T Consensus 42 ~IkkGD~V~Vi~Gk~KGk~GkV~~V~~k~~rV~Ve 76 (120) T 1vq8_T 42 RVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVE 76 (120) T ss_dssp ECCTTCEEEECSSTTTTCEEEEEEEETTTTEEEET T ss_pred CEECCCEEEEEECCCCCCCCEEEEEECCCCEEEEE T ss_conf 15079999995667699753299998679999994 No 14 >3h43_A Proteasome-activating nucleotidase; regulatory particle, nucleosidase, ATP-binding, cytoplasm, nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus jannaschii} Probab=47.48 E-value=15 Score=16.95 Aligned_cols=43 Identities=23% Similarity=0.204 Sum_probs=30.0 Q ss_pred HHHHHHHHCCCCCEEEECCCEEEEEEEECCCCEEEEEECCCCEEEEEEH Q ss_conf 9999997208998999968419999996179689999889979999855 Q gi|255764512|r 48 RRAEMLRNLRRGDSIVTAAGIVGKVVRVIDDLELEVEIAENVRVRVVRS 96 (108) Q Consensus 48 ~~~~m~~~Lk~Gd~VvT~gGi~G~V~~i~~d~~v~ve~~~~v~i~v~r~ 96 (108) +.++-++.|+ +..-++|++++..||+.+.+..+.|-+..+.-+ T Consensus 6 ~Lk~El~~L~------~pP~~vgtv~e~~dd~~~iVk~s~G~~~~V~v~ 48 (85) T 3h43_A 6 ILRRELDRMR------VPPLIVGTVVDKVGERKVVVKSSTGPSFLVNVS 48 (85) T ss_dssp HHHHHHHHHH------SCCEEEEEEEEEEETTEEEEEETTSSEEEEEBC T ss_pred HHHHHHHHHC------CCCCEEEEEEEEECCCEEEEEECCCCEEEEECC T ss_conf 9999999862------999589999998389869999679988999827 No 15 >2eve_A Hypothetical protein pspto5229; alpha-beta protein, structural genomics, PSI, protein struct initiative; HET: MPO; 1.60A {Pseudomonas syringae PV} SCOP: b.122.1.8 PDB: 2g2x_A Probab=47.34 E-value=12 Score=17.61 Aligned_cols=28 Identities=25% Similarity=0.572 Sum_probs=19.7 Q ss_pred HHHHHHHHCCCCCEEEE--CC----CEEEEEEEEC Q ss_conf 99999972089989999--68----4199999961 Q gi|255764512|r 48 RRAEMLRNLRRGDSIVT--AA----GIVGKVVRVI 76 (108) Q Consensus 48 ~~~~m~~~Lk~Gd~VvT--~g----Gi~G~V~~i~ 76 (108) +.++++.++++||.|.. +| ||+|. .++. T Consensus 33 qArn~lr~Mk~GD~v~fYHS~~~~~gIvGi-a~V~ 66 (157) T 2eve_A 33 QARNFLRTMAEGDEFFFYHSSCPEPGIAGI-GKIV 66 (157) T ss_dssp HHHHHHHHCCTTCEEEEEECSSSSCEEEEE-EEEE T ss_pred HHHHHHHHCCCCCEEEEEECCCCCCEEEEE-EEEE T ss_conf 999999736778889999617898828999-9997 No 16 >2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V Probab=40.83 E-value=19 Score=16.31 Aligned_cols=31 Identities=29% Similarity=0.580 Sum_probs=24.3 Q ss_pred HCCCCCEEEECC----CEEEEEEEECC-CCEEEEEE Q ss_conf 208998999968----41999999617-96899998 Q gi|255764512|r 55 NLRRGDSIVTAA----GIVGKVVRVID-DLELEVEI 85 (108) Q Consensus 55 ~Lk~Gd~VvT~g----Gi~G~V~~i~~-d~~v~ve~ 85 (108) .+++||+|.-.+ |--|+|.++.. .+.+.||- T Consensus 15 kikkGD~V~VisGkdKGK~G~Vl~V~~k~n~ViVeG 50 (115) T 2zjr_R 15 HFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEG 50 (115) T ss_dssp SSCTTSEEECCSSSSTTCEEEEEEEETTTTEEEESS T ss_pred EEECCCEEEEEECCCCCCCEEEEEEECCCCEEEEEC T ss_conf 231799999915578997178999988899999968 No 17 >2xdp_A Lysine-specific demethylase 4C; oxidoreductase, histone modification; 1.56A {Homo sapiens} Probab=38.36 E-value=21 Score=16.08 Aligned_cols=48 Identities=15% Similarity=0.121 Sum_probs=36.9 Q ss_pred HHHCCCCCEEEEC--CCE--EEEEEEECCCCEEEEEECCCCEEEEEEHHHHE Q ss_conf 9720899899996--841--99999961796899998899799998553410 Q gi|255764512|r 53 LRNLRRGDSIVTA--AGI--VGKVVRVIDDLELEVEIAENVRVRVVRSFVSE 100 (108) Q Consensus 53 ~~~Lk~Gd~VvT~--gGi--~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI~~ 100 (108) ...+++|++|.-. +|- -|+|.++.++.+-.|...||....+.|..|-. T Consensus 62 ~~~~~vG~~V~a~~~~~~~y~g~i~~~~~~~~Y~V~FdDG~~~~v~r~~i~~ 113 (123) T 2xdp_A 62 LGPPAEGEVVQVKWPDGKLYGAKYFGSNIAHMYQVEFEDGSQIAMKREDIYT 113 (123) T ss_dssp HCCCCTTCEEEEECTTSCEEEEEEEEEEEEEEEEEECTTSCEEEEEGGGCCC T ss_pred CCCCCCCCEEEEECCCCCEEEEEEEEEECCCEEEEEECCCCEEEECHHHEEE T ss_conf 5887889899999689829999999980587899999789989977899299 No 18 >3bdl_A Staphylococcal nuclease domain-containing protein 1; staphylococcal nuclease OB fold, tudor domain, cytoplasm, HOST-virus interaction, nucleus; HET: CIT; 1.90A {Homo sapiens} Probab=38.26 E-value=21 Score=16.07 Aligned_cols=31 Identities=13% Similarity=0.099 Sum_probs=12.9 Q ss_pred EEEEEEEECCCCEEEEEEC-CCCEEEEEEHHH Q ss_conf 1999999617968999988-997999985534 Q gi|255764512|r 68 IVGKVVRVIDDLELEVEIA-ENVRVRVVRSFV 98 (108) Q Consensus 68 i~G~V~~i~~d~~v~ve~~-~~v~i~v~r~aI 98 (108) +-|.|..+.+..++.+.+. ++..+++....| T Consensus 209 ~~~vVe~V~~g~~~~v~~~~~~~~i~v~L~GI 240 (570) T 3bdl_A 209 SEAVVEYVFSGSRLKLYLPKETCLITFLLAGI 240 (570) T ss_dssp EEEEEEEESSSSEEEEEETTTTEEEEEEESSE T ss_pred CCEEEEEECCCCEEEEEECCCCCEEEEEECCC T ss_conf 56899998479889999889881999997552 No 19 >1kq1_A HFQ, HOST factor for Q beta; hexamer, RNA binding protein, translational regulator, SM motif; 1.55A {Staphylococcus aureus} SCOP: b.38.1.2 PDB: 1kq2_A Probab=37.54 E-value=22 Score=16.00 Aligned_cols=56 Identities=11% Similarity=0.232 Sum_probs=37.9 Q ss_pred HHHHHHHHCCCCCE---EEECCC--EEEEEEEECCCCEEEEEECCCCEEEEEEHHHHEECCCC Q ss_conf 99999972089989---999684--19999996179689999889979999855341004778 Q gi|255764512|r 48 RRAEMLRNLRRGDS---IVTAAG--IVGKVVRVIDDLELEVEIAENVRVRVVRSFVSEVQSKS 105 (108) Q Consensus 48 ~~~~m~~~Lk~Gd~---VvT~gG--i~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI~~V~~k~ 105 (108) =+..+++++++... |-...| +-|+|... |++++.++. +|-.--+=|.||+.+.|.. T Consensus 7 lQd~fLn~~r~~~~~VtifL~NGvkl~G~I~~f-D~ftvlL~~-~g~qqLVYKHAISTI~p~~ 67 (77) T 1kq1_A 7 IQDKALENFKANQTEVTVFFLNGFQMKGVIEEY-DKYVVSLNS-QGKQHLIYKHAISTYTVET 67 (77) T ss_dssp HHHHHHHHHHHHTCEEEEEETTSCEEEEEEEEE-CSSEEEEEE-TTEEEEEEGGGEEEEEC-- T ss_pred HHHHHHHHHHHCCCCEEEEEECCCEEEEEEEEE-CCEEEEEEE-CCCEEEEEEEEEEEECCCC T ss_conf 379999999872984899997783788899977-654999980-8968899987778981477 No 20 >2cp6_A Restin; microtubule binding, cytoskeleton associated protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.34.10.1 Probab=37.22 E-value=22 Score=15.97 Aligned_cols=34 Identities=26% Similarity=0.303 Sum_probs=25.0 Q ss_pred HHCCCCCEEEECCCEEEEEEEECC-----CCEEEEEECC Q ss_conf 720899899996841999999617-----9689999889 Q gi|255764512|r 54 RNLRRGDSIVTAAGIVGKVVRVID-----DLELEVEIAE 87 (108) Q Consensus 54 ~~Lk~Gd~VvT~gGi~G~V~~i~~-----d~~v~ve~~~ 87 (108) ..|+.||+|...++-+|+|-=+.. ..++=||+.+ T Consensus 37 ~~~~vG~rV~v~g~~~G~VrfiG~~~fa~G~wvGVELde 75 (172) T 2cp6_A 37 RELKIGDRVLVGGTKAGVVRFLGETDFAKGEWCGVELDE 75 (172) T ss_dssp SCCCSSCEEEETTTEEEEEEEEEECSSSSSEEEEEEESS T ss_pred CCCEECCEEEECCCCEEEEEEECCCCCCCCCEEEEECCC T ss_conf 786108988989984599988167689885389888047 No 21 >2e3i_A Restin; CAP-Gly, cytoplasmic linker, tubulin binding, structural protein; 2.00A {Homo sapiens} SCOP: b.34.10.1 PDB: 2qk0_A Probab=33.57 E-value=22 Score=15.94 Aligned_cols=33 Identities=9% Similarity=0.074 Sum_probs=23.0 Q ss_pred HHCCCCCEEEECCCEEEEEEEEC-----CCCEEEEEEC Q ss_conf 72089989999684199999961-----7968999988 Q gi|255764512|r 54 RNLRRGDSIVTAAGIVGKVVRVI-----DDLELEVEIA 86 (108) Q Consensus 54 ~~Lk~Gd~VvT~gGi~G~V~~i~-----~d~~v~ve~~ 86 (108) ++++.||+|...++-.|+|-=+. +..++-||+. T Consensus 1 d~~~vG~rV~v~~~~~G~VryiG~~~~~~g~~vGVeld 38 (86) T 2e3i_A 1 DDFRVGERVWVNGNKPGFIQFLGETQFAPGQWAGIVLD 38 (86) T ss_dssp CCCCTTCEEEETTTEEEEEEEEEECSSSSSEEEEEEES T ss_pred CCCCCCCEEEECCCCEEEEEEEECCCCCCCEEEEEEEC T ss_conf 97500899998998479999963068988629999978 No 22 >1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4 Probab=33.50 E-value=25 Score=15.60 Aligned_cols=42 Identities=19% Similarity=0.331 Sum_probs=27.1 Q ss_pred HCCCCCEEEECC----CEEEEEEEECCC-CEEEEEEC---CCCEEEEEEH Q ss_conf 208998999968----419999996179-68999988---9979999855 Q gi|255764512|r 55 NLRRGDSIVTAA----GIVGKVVRVIDD-LELEVEIA---ENVRVRVVRS 96 (108) Q Consensus 55 ~Lk~Gd~VvT~g----Gi~G~V~~i~~d-~~v~ve~~---~~v~i~v~r~ 96 (108) +.++||.|.-.+ |..|+|.+++.+ ..+.+.+. ..+.+++.-+ T Consensus 4 ~F~~Gd~V~V~~GpF~g~~g~V~~i~~~~~rv~Vll~ifGr~t~vel~~~ 53 (58) T 1nz9_A 4 AFREGDQVRVVSGPFADFTGTVTEINPERGKVKVMVTIFGRETPVELDFS 53 (58) T ss_dssp SCCTTCEEEECSGGGTTCEEEEEEEETTTTEEEEEEESSSSEEEEEECGG T ss_pred CCCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEEEEECCCCCEEEECHH T ss_conf 30699999990368999899999991889999999994499823736989 No 23 >3ma8_A Pyruvate kinase; parasitology, pyruvate kiase, glycol kinase, magnesium, transferase, structural genomi structural genomics consortium; HET: CIT; 2.64A {Cryptosporidium parvum} Probab=31.93 E-value=27 Score=15.44 Aligned_cols=42 Identities=17% Similarity=0.381 Sum_probs=28.5 Q ss_pred HHHHHHCCCCCEEEECCC-EEEEEEEECCCCEEEEEECCCCEEE Q ss_conf 999972089989999684-1999999617968999988997999 Q gi|255764512|r 50 AEMLRNLRRGDSIVTAAG-IVGKVVRVIDDLELEVEIAENVRVR 92 (108) Q Consensus 50 ~~m~~~Lk~Gd~VvT~gG-i~G~V~~i~~d~~v~ve~~~~v~i~ 92 (108) .++...+++||.|....| +.-+|+++.+| .+..++-.+..++ T Consensus 162 ~~l~~~v~~Gd~I~idDG~i~l~V~~~~~~-~v~~~v~~~G~L~ 204 (534) T 3ma8_A 162 SLLPKSVQIGSTVLIADGSLSTQVLEIGDD-FIVCKVLNSVTIG 204 (534) T ss_dssp TTHHHHCCTTCEEEETTTTEEEEEEEECSS-EEEEEECSCCCCC T ss_pred HHHHHHCCCCCEEEEECCCEEEEEEEECCC-EEEEEEECCEEEC T ss_conf 676753578998999379548999996498-5999975254834 No 24 >2isb_A Fumarase, FUM-1; NP_069927.1, fumarase of FUM-1, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.66A {Archaeoglobus fulgidus} SCOP: c.8.9.1 Probab=30.33 E-value=25 Score=15.68 Aligned_cols=21 Identities=19% Similarity=0.357 Sum_probs=15.2 Q ss_pred HHHHHHCCCCCEEEECCCEEE Q ss_conf 999972089989999684199 Q gi|255764512|r 50 AEMLRNLRRGDSIVTAAGIVG 70 (108) Q Consensus 50 ~~m~~~Lk~Gd~VvT~gGi~G 70 (108) .+-+++|+.||.|..+|=||- T Consensus 25 ~e~i~~L~vGD~V~LsG~i~t 45 (192) T 2isb_A 25 KDQILKLKVGDVVYITGEIFT 45 (192) T ss_dssp HHHHHHCCTTCEEEEEEEEEE T ss_pred HHHHHHCCCCCEEEEEEEEEE T ss_conf 999962899999999769999 No 25 >2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli} Probab=29.76 E-value=29 Score=15.22 Aligned_cols=41 Identities=24% Similarity=0.248 Sum_probs=30.6 Q ss_pred HHHHHHHCCCCCEEEECCCEEEEEEEECCCCEEEEEECCCCEEEEEEH Q ss_conf 999997208998999968419999996179689999889979999855 Q gi|255764512|r 49 RAEMLRNLRRGDSIVTAAGIVGKVVRVIDDLELEVEIAENVRVRVVRS 96 (108) Q Consensus 49 ~~~m~~~Lk~Gd~VvT~gGi~G~V~~i~~d~~v~ve~~~~v~i~v~r~ 96 (108) ..++.+..++|+.| -|+|.++.+. -+.|++.+++.--+.++ T Consensus 22 f~~~~~~~k~G~iv------~G~V~~I~~~-Gv~V~l~~~i~G~i~~~ 62 (109) T 2khj_A 22 FNNWVALNKKGAIV------TGKVTAVDAK-GATVELADGVEGYLRAS 62 (109) T ss_dssp HHHHTTTCCSSSEE------EEEEEEECSS-CEEEECSTTCBCCBCTT T ss_pred HHHHHHHCCCCCEE------EEEEEEEECC-EEEEEECCCCEEEEEHH T ss_conf 89998648999999------9999999897-79999799978998689 No 26 >2pi2_E Replication protein A 14 kDa subunit; FULL-length RPA14/32, ssDNA binding protein, OB-fold, dioxane, DNA binding protein; 2.00A {Homo sapiens} SCOP: b.40.4.3 PDB: 2pqa_B 2z6k_C Probab=28.67 E-value=31 Score=15.10 Aligned_cols=35 Identities=9% Similarity=0.094 Sum_probs=26.0 Q ss_pred CCCEEEECCCEEEEEEEEC-CCCEEEEEECCCCEEEEEEH Q ss_conf 9989999684199999961-79689999889979999855 Q gi|255764512|r 58 RGDSIVTAAGIVGKVVRVI-DDLELEVEIAENVRVRVVRS 96 (108) Q Consensus 58 ~Gd~VvT~gGi~G~V~~i~-~d~~v~ve~~~~v~i~v~r~ 96 (108) .|-.|- ++|+|.++. ++..++++.+||..+++.-+ T Consensus 42 vGk~Vr----iVGkV~~v~~~g~~~~l~ssDg~~VtV~L~ 77 (142) T 2pi2_E 42 IDKPVC----FVGRLEKIHPTGKMFILSDGEGKNGTIELM 77 (142) T ss_dssp TTCEEE----EEEEEEEECTTSSEEEEECTTSCEEEEECS T ss_pred CCCEEE----EEEEEEEECCCCCEEEEECCCCCEEEEEEC T ss_conf 897699----999998876999889999499999999968 No 27 >2g3r_A Tumor suppressor P53-binding protein 1; tandem tudor domains, cell cycle/transcription complex; 1.25A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2ig0_A* 3lgf_A* 3lgl_A* 3lh0_A* 1xni_A Probab=28.61 E-value=31 Score=15.10 Aligned_cols=45 Identities=16% Similarity=0.259 Sum_probs=31.0 Q ss_pred HHHCCCCCEEEECC---CE--EEEEEEECCCCEEEEEECCCCEEEEEEHHH Q ss_conf 97208998999968---41--999999617968999988997999985534 Q gi|255764512|r 53 LRNLRRGDSIVTAA---GI--VGKVVRVIDDLELEVEIAENVRVRVVRSFV 98 (108) Q Consensus 53 ~~~Lk~Gd~VvT~g---Gi--~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI 98 (108) +++| +|++|...- |- -|+|.++..+.+..|...+|-+-.+...-| T Consensus 3 ~~~~-vG~rV~ar~~~~g~~y~g~V~~~~~~~~y~V~fdDG~~~~~~~~di 52 (123) T 2g3r_A 3 MNSF-VGLRVVAKWSSNGYFYSGKITRDVGAGKYKLLFDDGYECDVLGKDI 52 (123) T ss_dssp --CC-TTCEEEEECTTTCCEEEEEEEEEEETTEEEEEETTSCEEEEEGGGE T ss_pred CCCC-CCCEEEEEECCCCEEEEEEEEEECCCCEEEEEECCCCEEECCHHHE T ss_conf 6666-7899999988999098899999737888999987899666062565 No 28 >2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I* 3l7z_C Probab=27.06 E-value=25 Score=15.59 Aligned_cols=49 Identities=14% Similarity=0.318 Sum_probs=33.6 Q ss_pred HHHHHHCCCCCEEEECCCEEEEEEEECCCCEEEEEE--------CCCCEEEEEEHHHHEECCC Q ss_conf 999972089989999684199999961796899998--------8997999985534100477 Q gi|255764512|r 50 AEMLRNLRRGDSIVTAAGIVGKVVRVIDDLELEVEI--------AENVRVRVVRSFVSEVQSK 104 (108) Q Consensus 50 ~~m~~~Lk~Gd~VvT~gGi~G~V~~i~~d~~v~ve~--------~~~v~i~v~r~aI~~V~~k 104 (108) .+|...+++||-| +++|.+++++..+.+.. ..|..+++.-+-+.+++.+ T Consensus 116 ~~~r~~l~~GDlV------~ArV~~v~~~~~~~Ls~~~~~lG~L~~G~l~~v~~~~v~rli~~ 172 (251) T 2je6_I 116 EDLRRYLDVGDYV------IARIENFDRSIDPVLSVKGKDLGRVSNGIVIDIMPVKVPRVIGK 172 (251) T ss_dssp CCCSSSCCTTCEE------EEEEEEEETTEEEEEECCSTTCEECCSSCEEECCGGGHHHHHCG T ss_pred HHHHHHCCCCCEE------EEEEEEECCCCCEEEEECCCCCCEECCCEEEEEECCCCCCEEEC T ss_conf 6589647999999------99999955888669985378875814888999614345203516 No 29 >1pcq_O Groes protein; chaperone; HET: ADP; 2.81A {Escherichia coli} SCOP: b.35.1.1 PDB: 1gru_O 1aon_O* 1pf9_O* 1svt_O* 1sx4_O* 2c7c_O 2c7d_O Probab=26.12 E-value=29 Score=15.21 Aligned_cols=25 Identities=20% Similarity=0.452 Sum_probs=13.4 Q ss_pred HCCCCCEEEECC--CEEEEEEEECCCCEE Q ss_conf 208998999968--419999996179689 Q gi|255764512|r 55 NLRRGDSIVTAA--GIVGKVVRVIDDLEL 81 (108) Q Consensus 55 ~Lk~Gd~VvT~g--Gi~G~V~~i~~d~~v 81 (108) ++|+||.|+..- |. .+...++++.+ T Consensus 58 ~vk~GD~Vl~~~~~g~--~~~~~~g~~y~ 84 (97) T 1pcq_O 58 DVKVGDIVIFNDGYGV--KSEKIDNEEVL 84 (97) T ss_dssp SCCTTCEEEECCCSSC--EEEEETTEEEE T ss_pred CCCCCCEEEECCCCCC--CEEEECCEEEE T ss_conf 1699999998365586--37978997999 No 30 >1zce_A Hypothetical protein ATU2648; alpha-beta protein., structural genomics, PSI, protein structure initiative; 1.30A {Agrobacterium tumefaciens str} SCOP: b.122.1.8 Probab=25.08 E-value=23 Score=15.81 Aligned_cols=27 Identities=22% Similarity=0.288 Sum_probs=19.6 Q ss_pred HHHHHHHHHHCCCCCEEEE-----CCCEEEEE Q ss_conf 9999999972089989999-----68419999 Q gi|255764512|r 46 LQRRAEMLRNLRRGDSIVT-----AAGIVGKV 72 (108) Q Consensus 46 ~k~~~~m~~~Lk~Gd~VvT-----~gGi~G~V 72 (108) .-+.++++.++++||.|.. .-|++|.+ T Consensus 34 NyqArn~lr~Mk~GD~vlfYHS~~~~~ivg~~ 65 (155) T 1zce_A 34 NYQARNNMRAMKIGDKGFFYHSNEGLDVVGIV 65 (155) T ss_dssp CHHHHHHHHTCCTTCEEEEEETTTTCEEEEEE T ss_pred CHHHHHHHHHCCCCCEEEEEECCCCCCCEEEE T ss_conf 09999999852678889999638989825899 No 31 >1u1s_A HFQ protein; SM-like bacterial protein, riken structural genomics/proteomics initiative, RSGI, structural genomics, RNA binding protein; 1.60A {Pseudomonas aeruginosa} SCOP: b.38.1.2 PDB: 1u1t_A 1hk9_A 3gib_A* Probab=24.59 E-value=36 Score=14.65 Aligned_cols=55 Identities=22% Similarity=0.289 Sum_probs=37.4 Q ss_pred HHHHHHHHCCCC---CEEEECCCE--EEEEEEECCCCEEEEEECCCCEEEEEEHHHHEECCCC Q ss_conf 999999720899---899996841--9999996179689999889979999855341004778 Q gi|255764512|r 48 RRAEMLRNLRRG---DSIVTAAGI--VGKVVRVIDDLELEVEIAENVRVRVVRSFVSEVQSKS 105 (108) Q Consensus 48 ~~~~m~~~Lk~G---d~VvT~gGi--~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI~~V~~k~ 105 (108) =+..+++++++. -.|-..+|+ -|+|... |++++.++ ..+.. -+=|.||+.++|.. T Consensus 7 lQd~fLn~lrk~~~~VtifL~nGvkl~G~I~~f-D~ftvLL~-~~~~Q-LVYKHAISTI~P~~ 66 (82) T 1u1s_A 7 LQDPYLNTLRKERVPVSIYLVNGIKLQGQIESF-DQFVILLK-NTVSQ-MVYKHAISTVVPSR 66 (82) T ss_dssp CHHHHHHHHHHTTCCEEEEETTSCEEEEEEEEE-CSSEEEEE-SSSCE-EEEGGGEEEEEESS T ss_pred HHHHHHHHHHHCCCCEEEEEECCCEEEEEEEEE-CCEEEEEE-CCCEE-EEEEEEEEEECCCC T ss_conf 379999999871884899996584788899977-54599997-79816-99976678873674 No 32 >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=23.22 E-value=39 Score=14.49 Aligned_cols=50 Identities=10% Similarity=0.172 Sum_probs=36.6 Q ss_pred HHCCCCCEEEECC--C-E-EEEEEEECCCCEEEEEECCCCEEEEEEHHHHEECCC Q ss_conf 7208998999968--4-1-999999617968999988997999985534100477 Q gi|255764512|r 54 RNLRRGDSIVTAA--G-I-VGKVVRVIDDLELEVEIAENVRVRVVRSFVSEVQSK 104 (108) Q Consensus 54 ~~Lk~Gd~VvT~g--G-i-~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI~~V~~k 104 (108) ...++||+|.-.- | . -|+|.++.++.+..|...+|..-++.+..|.. +|+ T Consensus 8 ~~~~vGd~v~ArwsD~~~Y~a~I~~~~~~~~y~V~fdDG~~e~V~~~~Ir~-lp~ 61 (74) T 2equ_A 8 FDFKAGEEVLARWTDCRYYPAKIEAINKEGTFTVQFYDGVIRCLKRMHIKA-MPE 61 (74) T ss_dssp CCCCTTCEEEEECSSSSEEEEEEEEESTTSSEEEEETTSCEEEECGGGEEC-CCG T ss_pred CCCCCCCEEEEECCCCCEEEEEEEEECCCCEEEEEEECCCEEEEEHHHCEE-CCH T ss_conf 667879999999799949989999987899799999669999970899289-886 No 33 >2f95_B Sensory rhodopsin II transducer; membrane protein complex, signal transduction, photocycle state; HET: BOG RET; 2.20A {Natronomonas pharaonis} SCOP: f.17.4.1 Probab=22.79 E-value=32 Score=15.01 Aligned_cols=26 Identities=19% Similarity=0.079 Sum_probs=17.0 Q ss_pred HHHCCCHHHHHHHHHHHHHHCCCCCE Q ss_conf 99606128999999999972089989 Q gi|255764512|r 36 FLLIRPQRQQLQRRAEMLRNLRRGDS 61 (108) Q Consensus 36 F~~iRPq~Kr~k~~~~m~~~Lk~Gd~ 61 (108) +++.|.-.+.-++..+..+.+..||- T Consensus 77 ~~i~r~i~~Pl~~l~~~~~~i~~Gdl 102 (163) T 2f95_B 77 ATLGGDTAASLSTLAAKASRMGDGDL 102 (163) T ss_dssp -------------------------- T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 99999999999999999998726985 No 34 >1g31_A GP31; chaperone, CO-chaperonin, groes, in VIVO protein folding, bacteriophage T4; 2.30A {Enterobacteria phage T4} SCOP: b.35.1.1 PDB: 2cgt_O Probab=22.78 E-value=12 Score=17.63 Aligned_cols=23 Identities=35% Similarity=0.394 Sum_probs=17.9 Q ss_pred CCCCCEEEECCCE------------EEEEEEECCC Q ss_conf 0899899996841------------9999996179 Q gi|255764512|r 56 LRRGDSIVTAAGI------------VGKVVRVIDD 78 (108) Q Consensus 56 Lk~Gd~VvT~gGi------------~G~V~~i~~d 78 (108) -..|||+++.+|| +|+|+++.+| T Consensus 23 ~~aGdEi~S~~GivlG~r~qgEiP~~g~V~SVGpd 57 (111) T 1g31_A 23 AQAGDEEVTESGLIIGKRVQGEVPELCVVHSVGPD 57 (111) T ss_dssp SCGGGCTTSCTTCCCCHHHHHHSEEEEEEEEECTT T ss_pred CCCCCEEECCCCEEEEEECCCCCCEEEEEEEECCC T ss_conf 23785544245359985116878646799984899 No 35 >2p5d_A UPF0310 protein mjecl36; NPPSFA, national project on protein structural and functional analyses; 1.70A {Methanocaldococcus jannaschii} Probab=22.64 E-value=40 Score=14.42 Aligned_cols=16 Identities=13% Similarity=0.434 Sum_probs=12.6 Q ss_pred HHHHHHCCCCCEEEEC Q ss_conf 9999720899899996 Q gi|255764512|r 50 AEMLRNLRRGDSIVTA 65 (108) Q Consensus 50 ~~m~~~Lk~Gd~VvT~ 65 (108) +..++.+|+||+|+-= T Consensus 32 r~~l~rmk~GD~v~fY 47 (147) T 2p5d_A 32 KNTINKVKVGDKLIIY 47 (147) T ss_dssp HHHHTTCCTTCEEEEE T ss_pred HHHHHHCCCCCEEEEE T ss_conf 7899737888889999 No 36 >1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane, major facilitator superfamily, secondary active membrane transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1 Probab=22.36 E-value=36 Score=14.65 Aligned_cols=11 Identities=27% Similarity=0.598 Sum_probs=4.2 Q ss_pred HHHHHHHHHCC Q ss_conf 99999997208 Q gi|255764512|r 47 QRRAEMLRNLR 57 (108) Q Consensus 47 k~~~~m~~~Lk 57 (108) |+++++.+++. T Consensus 439 ~~~~~~~~e~~ 449 (451) T 1pw4_A 439 RRHEQLLQELV 449 (451) T ss_dssp HHHHGGGGGSC T ss_pred CCHHHHHHHCC T ss_conf 61667887607 No 37 >3id1_A Regulator of sigma E protease; hydrolase, cell inner membrane, cell membrane, membrane, metal-binding, metalloprotease, transmembrane; 1.67A {Escherichia coli k-12} PDB: 2zpl_A Probab=21.45 E-value=40 Score=14.40 Aligned_cols=19 Identities=16% Similarity=0.263 Sum_probs=15.2 Q ss_pred HHHHHCCCCCEEEECCCEE Q ss_conf 9997208998999968419 Q gi|255764512|r 51 EMLRNLRRGDSIVTAAGIV 69 (108) Q Consensus 51 ~m~~~Lk~Gd~VvT~gGi~ 69 (108) +-.+.|+.||+|+...|-- T Consensus 15 A~~AGl~~GD~I~sIng~~ 33 (95) T 3id1_A 15 AAEAQIAPGTELKAVDGIE 33 (95) T ss_dssp HHHTTCCTTCEEEEETTEE T ss_pred HHHCCCCCCCEEEEECCEE T ss_conf 9986999999999999997 No 38 >2gbs_A Hypothetical protein RPA0253; alpha-beta, RPR3, NESG, structural genomics, COG294 protein structure initiative; NMR {Rhodopseudomonas palustris CGA009} SCOP: b.122.1.8 Probab=21.33 E-value=31 Score=15.09 Aligned_cols=30 Identities=27% Similarity=0.367 Sum_probs=20.8 Q ss_pred HHHHHHHHHHCCCCCEEEE-----CCCEEEEEEEEC Q ss_conf 9999999972089989999-----684199999961 Q gi|255764512|r 46 LQRRAEMLRNLRRGDSIVT-----AAGIVGKVVRVI 76 (108) Q Consensus 46 ~k~~~~m~~~Lk~Gd~VvT-----~gGi~G~V~~i~ 76 (108) .-+.++++.++++||.+.. .-||+|.. ++. T Consensus 33 NyqARn~mr~M~~GD~~~fYHS~~~p~IvG~~-~V~ 67 (145) T 2gbs_A 33 NHSAKLHMVAMRRGDRAFYYHSNEGKEIVGIA-EII 67 (145) T ss_dssp CHHHHHHHHHCCTTCEEEEEETTTTCEEEEEE-EEE T ss_pred CHHHHHHHHHHCCCCEEEEEECCCCCCCEEEE-EEE T ss_conf 29999999860668889998628998714898-762 No 39 >3gr4_A Pyruvate kinase isozymes M1/M2; activator, acetylation, allosteric enzyme, alternative splicing, glycolysis, magnesium, metal-binding; HET: FBP TLA DYY ADP; 1.60A {Homo sapiens} PDB: 3gqy_A* 3h6o_A* 3me3_A* 1zjh_A 3g2g_A 1t5a_A* 3bjt_A 3bjf_A* 1f3x_A 3n25_A 1f3w_A 1a49_A* 1a5u_A* 1aqf_A* 1pkm_A 2g50_A* 1pkn_A 2vgb_A* 2vgf_A* 2vgg_A* ... Probab=21.07 E-value=43 Score=14.22 Aligned_cols=42 Identities=17% Similarity=0.219 Sum_probs=27.3 Q ss_pred HHHHHHCCCCCEEEECCCEEEE-EEEECCCCEEEEEECCCCEEE Q ss_conf 9999720899899996841999-999617968999988997999 Q gi|255764512|r 50 AEMLRNLRRGDSIVTAAGIVGK-VVRVIDDLELEVEIAENVRVR 92 (108) Q Consensus 50 ~~m~~~Lk~Gd~VvT~gGi~G~-V~~i~~d~~v~ve~~~~v~i~ 92 (108) .++...+++||+|....|.+.- |.++.+| .+..++-.|..++ T Consensus 181 ~~l~~~vk~Gd~I~idDG~i~l~V~~~~~~-~i~~~V~~gG~L~ 223 (550) T 3gr4_A 181 KNICKVVEVGSKIYVDDGLISLQVKQKGAD-FLVTEVENGGSLG 223 (550) T ss_dssp TTHHHHCCTTCEEEETTTTEEEEEEEECSS-EEEEEEEECEEEC T ss_pred HHCCCCCCCCCEEEEECCCCEEEEEEECCC-CCEEEECCCCEEC T ss_conf 101000377838999547508999887068-5179972573876 No 40 >3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.31A {Nostoc SP} Probab=21.05 E-value=43 Score=14.22 Aligned_cols=38 Identities=16% Similarity=0.182 Sum_probs=30.9 Q ss_pred CEEEEEEEECCCCEEEEEECCCCEEEEEEHHHHEECCCC Q ss_conf 419999996179689999889979999855341004778 Q gi|255764512|r 67 GIVGKVVRVIDDLELEVEIAENVRVRVVRSFVSEVQSKS 105 (108) Q Consensus 67 Gi~G~V~~i~~d~~v~ve~~~~v~i~v~r~aI~~V~~k~ 105 (108) =+.|++ ...|.+-+.+..+++-.+-+.|+||+-+.|++ T Consensus 35 ~l~G~l-~WQDp~clcl~~~~~~p~lI~R~ai~~irp~g 72 (72) T 3hfn_A 35 AITGRV-LWQDPTCVCIADENSRQTTIWKQAIAYLQPKG 72 (72) T ss_dssp EEEEEE-EEECSSEEEEEC---CEEEEEGGGEEEEEEC- T ss_pred EEEEEE-EEECCCEEEEECCCCCCEEEEEEEEEEEECCC T ss_conf 898999-85589789985688991888501234771279 No 41 >1a3w_A Pyruvate kinase; allosteric regulation, tranferase, transferase; HET: FBP; 3.00A {Saccharomyces cerevisiae} SCOP: b.58.1.1 c.1.12.1 c.49.1.1 PDB: 1a3x_A Probab=20.38 E-value=44 Score=14.13 Aligned_cols=43 Identities=21% Similarity=0.407 Sum_probs=24.4 Q ss_pred HHHHHHCCCCCEEEECCCEEE-EEEEECCCCEEEEEECCCCEEE Q ss_conf 999972089989999684199-9999617968999988997999 Q gi|255764512|r 50 AEMLRNLRRGDSIVTAAGIVG-KVVRVIDDLELEVEIAENVRVR 92 (108) Q Consensus 50 ~~m~~~Lk~Gd~VvT~gGi~G-~V~~i~~d~~v~ve~~~~v~i~ 92 (108) .++...+++||+|....|.+- +|++..+|..+..+.-.+.+++ T Consensus 131 ~~l~~~v~~Gd~ilidDG~i~l~V~~~~~~~~~~~~v~~~G~l~ 174 (500) T 1a3w_A 131 KNITKVISAGRIIYVDDGVLSFQVLEVVDDKTLKVKALNAGKIC 174 (500) T ss_dssp TTHHHHCCTTCEEEETTTTEEEECCBCCC--CEEEEBCSCCCCC T ss_pred CCCHHHCCCCCEEEEECCCEEEEEEEECCCEEEEEEEEECEEEC T ss_conf 00010058997799626835899999549818999998374970 No 42 >3eop_A Thymocyte nuclear protein 1; protein of unknown function, alternative splicing, nucleus, phosphoprotein; 2.30A {Homo sapiens} Probab=20.37 E-value=33 Score=14.89 Aligned_cols=31 Identities=19% Similarity=0.473 Sum_probs=21.6 Q ss_pred HHHHHHHHHHHCCCCCEEEE------CCCEEEEEEEEC Q ss_conf 99999999972089989999------684199999961 Q gi|255764512|r 45 QLQRRAEMLRNLRRGDSIVT------AAGIVGKVVRVI 76 (108) Q Consensus 45 r~k~~~~m~~~Lk~Gd~VvT------~gGi~G~V~~i~ 76 (108) |.-+.++++.++|+||.+.. .-||.|. .+|. T Consensus 41 RNyqArn~lR~Mk~GD~~ffYHS~~~~~~IvGi-~~V~ 77 (176) T 3eop_A 41 RNYQARNFLRAMKLGEEAFFYHSNCKEPGIAGL-MKIV 77 (176) T ss_dssp CCHHHHHHHHHCCTTCEEEEEECCSSSCEEEEE-EEEE T ss_pred CCHHHHHHHHHCCCCCEEEEEECCCCCCCEEEE-EEEE T ss_conf 449999999865578889998527899828999-9998 No 43 >3ht4_A Aluminum resistance protein; lyase, putative cystathionine BEAT-lyase, aluminium resistance protein, Q81A77_baccr, NESG, BCR213; 2.90A {Bacillus cereus atcc 14579} Probab=20.33 E-value=44 Score=14.13 Aligned_cols=31 Identities=29% Similarity=0.475 Sum_probs=22.9 Q ss_pred HCCCH--HHHHHHHHHHHHHCCCCCEEEECCCE Q ss_conf 60612--89999999999720899899996841 Q gi|255764512|r 38 LIRPQ--RQQLQRRAEMLRNLRRGDSIVTAAGI 68 (108) Q Consensus 38 ~iRPq--~Kr~k~~~~m~~~Lk~Gd~VvT~gGi 68 (108) +.||| .=-+--...+.+-|++||+|+...|- T Consensus 84 lvrp~f~SGt~Ai~~al~alL~pGDeVI~~~g~ 116 (431) T 3ht4_A 84 LVRPQIISGTHAISTALFGILRPGDELLYITGK 116 (431) T ss_dssp CCBTTSCSHHHHHHHHHHTTCCTTCEEEECSSS T ss_pred EEECCCCCHHHHHHHHHHHHCCCCCEEEEECCC T ss_conf 763465776999999999717899989993498 No 44 >3c2q_A Uncharacterized conserved protein; putative LOR/SDH, structural genomics, PSI-2, protein structure initiative; 2.00A {Methanococcus maripaludis S2} Probab=20.29 E-value=44 Score=14.12 Aligned_cols=17 Identities=29% Similarity=0.718 Sum_probs=12.8 Q ss_pred HHHCCCCCEEEECC-CEE Q ss_conf 97208998999968-419 Q gi|255764512|r 53 LRNLRRGDSIVTAA-GIV 69 (108) Q Consensus 53 ~~~Lk~Gd~VvT~g-Gi~ 69 (108) ...||+||+|++.- ||+ T Consensus 68 ~r~lk~GD~VVvG~~GI~ 85 (345) T 3c2q_A 68 IRKVKKGDFVLIGHNGIR 85 (345) T ss_dssp GGGCCTTCEEEESSSSEE T ss_pred CCCCCCCCEEEECCCEEE T ss_conf 554677997998897449 Done!