Query T0605 3NMD, , 72 residues Match_columns 72 No_of_seqs 11 out of 13 Neff 2.0 Searched_HMMs 22458 Date Mon Jul 5 08:51:17 2010 Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0605.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pdb70_15May10_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pdb70search/T0605.hhr No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1zxa_A CGMP-dependent protein 94.7 0.036 1.6E-06 33.4 4.8 37 35-71 20-56 (67) 2 3jsv_C NF-kappa-B essential mo 88.6 1.4 6.4E-05 23.8 7.8 51 20-70 3-56 (94) 3 1deq_A Fibrinogen (alpha chain 83.8 2.5 0.00011 22.3 7.5 31 37-67 131-161 (390) 4 1ykh_A RNA polymerase II media 77.2 3.8 0.00017 21.2 5.2 53 19-71 49-107 (108) 5 1wt6_A Myotonin-protein kinase 64.0 8.5 0.00038 19.1 7.9 58 11-68 2-66 (81) 6 3ghg_A Fibrinogen alpha chain; 63.5 8.7 0.00039 19.1 7.8 25 41-65 132-156 (562) 7 3kin_B Kinesin heavy chain; mo 60.9 9.7 0.00043 18.8 4.4 51 18-68 57-117 (117) 8 1t98_A KICB protein, chromosom 59.6 10 0.00045 18.7 4.3 54 16-69 210-266 (287) 9 2wg5_A General control protein 48.4 12 0.00054 18.2 3.2 29 41-69 8-36 (109) 10 2v4h_A NF-kappa-B essential mo 38.0 23 0.001 16.6 7.3 52 18-69 23-77 (110) 11 2pms_C Pneumococcal surface pr 34.5 23 0.001 16.6 2.8 35 33-67 89-123 (125) 12 1use_A VAsp, vasodilator-stimu 33.6 27 0.0012 16.1 4.5 29 23-51 8-41 (45) 13 2gzd_C RAB11 family-interactin 33.5 20 0.00087 17.0 2.3 32 36-67 46-80 (107) 14 1lwu_C Fibrinogen gamma chain; 31.7 29 0.0013 15.9 8.0 51 20-70 6-56 (323) 15 2e7s_A RAB guanine nucleotide 30.9 29 0.0013 15.9 2.9 38 33-70 96-133 (135) 16 1n6m_A Claret segregational pr 26.6 35 0.0016 15.4 7.1 33 36-68 24-56 (409) 17 3euh_A Protein KICB, chromosom 26.1 36 0.0016 15.3 4.0 54 16-69 210-266 (440) 18 1m1j_A Fibrinogen alpha subuni 25.6 37 0.0016 15.3 7.9 33 36-68 128-160 (491) 19 1t6f_A Geminin; coiled-coil, c 24.6 39 0.0017 15.2 3.6 24 44-67 11-34 (37) 20 2dgc_A Protein (GCN4); basic d 24.4 39 0.0017 15.2 5.1 33 38-70 28-60 (63) 21 2akf_A Coronin-1A; coiled coil 24.2 39 0.0018 15.1 3.7 26 45-70 4-29 (32) 22 1vcs_A Vesicle transport throu 23.2 41 0.0018 15.0 4.0 26 37-62 35-60 (102) 23 1oxj_A RNA-binding protein sma 22.6 42 0.0019 14.9 3.7 44 24-70 51-94 (173) 24 3m0d_C TNF receptor-associated 22.4 43 0.0019 14.9 4.2 24 39-62 19-42 (65) 25 3fx0_A NF-kappa-B essential mo 20.4 17 0.00078 17.3 0.1 48 22-69 20-70 (96) 26 2p4f_A Similar to SP|P32453 sa 20.1 17 0.00075 17.4 0.0 34 12-45 24-57 (299) 27 3eh0_A UDP-3-O-[3-hydroxymyris 20.1 46 0.002 14.7 2.2 22 29-53 320-341 (341) 28 2e5n_A RNA polymerase II elong 20.0 48 0.0021 14.6 3.7 35 37-71 14-54 (100) No 1 >1zxa_A CGMP-dependent protein kinase 1, alpha isozyme; parallel coiled coil dimer, transferase; NMR {Homo sapiens} Probab=94.73 E-value=0.036 Score=33.39 Aligned_cols=37 Identities=41% Similarity=0.529 Sum_probs=34.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 9889999999999873399999999988998986515 Q T0605 35 LRQRDALIDELELELDQKDELIQMLQNELDKYRSVIR 71 (72) Q Consensus 35 lr~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRsvvr 71 (72) |-.++|.|++||.-|.+|++-|+-|.-.|.|+.||+- T Consensus 20 lllkeerikelerrl~eke~eiqelkrklhkcqsvlp 56 (67) T 1zxa_A 20 LMLKEERIKELEKRLSEKEEEIQELKRKLHKCQSVLP 56 (67) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 9977999999999987338999999999985111168 No 2 >3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B Probab=88.59 E-value=1.4 Score=23.76 Aligned_cols=51 Identities=33% Similarity=0.505 Sum_probs=42.9 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH Q ss_conf 1899999998889999889999999999873399---99999998899898651 Q T0605 20 SLRDLQYALQEKIEELRQRDALIDELELELDQKD---ELIQMLQNELDKYRSVI 70 (72) Q Consensus 20 slrdLq~aL~~K~eElr~rDe~I~~LE~ELdeKD---~lIr~LqnELDKyRsvv 70 (72) -+.+|+--|...-+.|..++..|+.|...+..+. +.|-.|+-+.|-||+=. T Consensus 3 el~~L~~~L~~aE~~L~~~q~~i~el~~~i~q~~~~~e~I~~L~aQ~DiyraDF 56 (94) T 3jsv_C 3 QLEDLRQQLQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADF 56 (94) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 089999999999999999998899999999988877438999999999999879 No 3 >1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos taurus} SCOP: i.9.1.1 Probab=83.84 E-value=2.5 Score=22.26 Aligned_cols=31 Identities=13% Similarity=0.101 Sum_probs=19.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8999999999987339999999998899898 Q T0605 37 QRDALIDELELELDQKDELIQMLQNELDKYR 67 (72) Q Consensus 37 ~rDe~I~~LE~ELdeKD~lIr~LqnELDKyR 67 (72) .....|+.|+..+.++..-|+.|+.+||.+. T Consensus 131 ~~~~~i~~L~~~i~~~~~ei~~le~~~~~~~ 161 (390) T 1deq_A 131 EQVQRINLLQKNVRDQLVDMKRLEVDIDIKI 161 (390) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999988888888 No 4 >1ykh_A RNA polymerase II mediator complex protein MED7; gene regulation; 3.00A {Saccharomyces cerevisiae} SCOP: a.252.1.2 PDB: 1yke_A Probab=77.25 E-value=3.8 Score=21.20 Aligned_cols=53 Identities=17% Similarity=0.241 Sum_probs=40.6 Q ss_pred CCHHHHHHHHH---HHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 01899999998---889---999889999999999873399999999988998986515 Q T0605 19 GSLRDLQYALQ---EKI---EELRQRDALIDELELELDQKDELIQMLQNELDKYRSVIR 71 (72) Q Consensus 19 gslrdLq~aL~---~K~---eElr~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRsvvr 71 (72) ..+.|+...|. .-+ ..---|+.+|..+|.-+++|-+.|..+..-.|+.+++++ T Consensus 49 ~kv~~l~~Lf~NmHhlLNeyRPhQAResLi~lme~Ql~~kr~~ie~i~~~~~~v~~~L~ 107 (108) T 1ykh_A 49 RKVENIRTILVNIHHLLNEYRPHQSRESLIMLLEEQLEYKRGEIREIEQVCKQVHDKLT 107 (108) T ss_dssp HHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_pred HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 78999999999999999851818899999999999999999999999999999999875 No 5 >1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens} Probab=63.99 E-value=8.5 Score=19.11 Aligned_cols=58 Identities=22% Similarity=0.311 Sum_probs=34.1 Q ss_pred CCHHCCCCCCHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 2011011101899999998889-------999889999999999873399999999988998986 Q T0605 11 GMASIEGRGSLRDLQYALQEKI-------EELRQRDALIDELELELDQKDELIQMLQNELDKYRS 68 (72) Q Consensus 11 ~~~~~~~~gslrdLq~aL~~K~-------eElr~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRs 68 (72) .||..+..-++++||-+|+.-| +||++--+---..+..|.+-..-++-|..|+.+.+. T Consensus 2 ~~~~~~~~~~LleLQSALqaEI~AKQ~i~eEL~kvr~a~i~~e~~L~eaekrn~~L~~Ei~~l~e 66 (81) T 1wt6_A 2 AMAEAEAEVTLRELQEALEEEVLTRQSLSREMEAIRTDNQNFASQLREAEARNRDLEAHVRQLQE 66 (81) T ss_dssp -------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 30278879899999999999999989999999999999999999989999989999999999999 No 6 >3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, alternative splicing, amyloid, amyloidosis, blood coagulation, coiled coil; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G* Probab=63.52 E-value=8.7 Score=19.06 Aligned_cols=25 Identities=16% Similarity=0.155 Sum_probs=10.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999873399999999988998 Q T0605 41 LIDELELELDQKDELIQMLQNELDK 65 (72) Q Consensus 41 ~I~~LE~ELdeKD~lIr~LqnELDK 65 (72) .|..|+..|.+.-.-|+.|+.+||. T Consensus 132 ~~~~l~~~l~~~~~~~~~le~~~~~ 156 (562) T 3ghg_A 132 HIQLLQKNVRAQLVDMKRLEVDIDI 156 (562) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999999 No 7 >3kin_B Kinesin heavy chain; motor protein, cytoskeleton; HET: ADP; 3.10A {Rattus norvegicus} SCOP: c.37.1.9 Probab=60.86 E-value=9.7 Score=18.77 Aligned_cols=51 Identities=16% Similarity=0.212 Sum_probs=32.2 Q ss_pred CCCHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 101899999998889----------999889999999999873399999999988998986 Q T0605 18 RGSLRDLQYALQEKI----------EELRQRDALIDELELELDQKDELIQMLQNELDKYRS 68 (72) Q Consensus 18 ~gslrdLq~aL~~K~----------eElr~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRs 68 (72) .-|+.-|+||-+-|- .......+.++.++.+++.-.+.|+.|+.|++++|+ T Consensus 57 ~ETlsTL~fa~rak~I~~~~~~n~~~~~~~l~~~~~~~~~~~~~l~~~i~~Le~el~~lrn 117 (117) T 3kin_B 57 AETKSTLMFGQRAKTIKNTVSVNLELTAEEWKKKYEKEKEKNKALKSVIQHLEVELNRWRN 117 (117) T ss_dssp HHHHHHHHHHHHHTTCEEEECCCBCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC T ss_pred HHHHHHHHHHHHHHCCCCCCEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 8889999999997304575536634589999999999999999999999999999998609 No 8 >1t98_A KICB protein, chromosome partition protein MUKF; winged helix, coiled coil, helix-turn helix, domain swapped, condensin, cell cycle; 2.90A {Escherichia coli} SCOP: a.4.5.65 a.47.6.1 Probab=59.58 E-value=10 Score=18.67 Aligned_cols=54 Identities=31% Similarity=0.357 Sum_probs=41.1 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 1110189999999888999988999999999---98733999999999889989865 Q T0605 16 EGRGSLRDLQYALQEKIEELRQRDALIDELE---LELDQKDELIQMLQNELDKYRSV 69 (72) Q Consensus 16 ~~~gslrdLq~aL~~K~eElr~rDe~I~~LE---~ELdeKD~lIr~LqnELDKyRsv 69 (72) |--||+||||-.|.-....+-.-=..|+.-- .++..-|.++..||+-||+-+|- T Consensus 210 etsgtLRELqdtL~aagD~lqaqLl~IQ~~~~~~~~~~~vd~~~~~Lq~kLDrI~sw 266 (287) T 1t98_A 210 ETSGTLRELQDTLEAAGDKLQANLLRIQDATMTHDDLHFVDRLVFDLQSKLDRIISW 266 (287) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 998779999999997378999999999999855761889999999999999999999 No 9 >2wg5_A General control protein GCN4, proteasome-activating nucleotidase; transcription hydrolase complex, nucleotide-binding; 2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A Probab=48.42 E-value=12 Score=18.20 Aligned_cols=29 Identities=24% Similarity=0.256 Sum_probs=22.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999998733999999999889989865 Q T0605 41 LIDELELELDQKDELIQMLQNELDKYRSV 69 (72) Q Consensus 41 ~I~~LE~ELdeKD~lIr~LqnELDKyRsv 69 (72) .++.||.++.+-..-|..|+.|++++++. T Consensus 8 r~k~Le~~~~~l~~ei~~Lk~Ei~~l~~~ 36 (109) T 2wg5_A 8 RMKQLEDKVEELLSKNYHLENEVARLRSP 36 (109) T ss_dssp -CHHHHHHHHHHHHHHHHHHHHHHHHHSC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 99999999999999999999999974699 No 10 >2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, phosphoprotein, zinc, nucleus, cytoplasm, zinc-finger, coiled coil; 2.9A {Mus musculus} Probab=38.03 E-value=23 Score=16.56 Aligned_cols=52 Identities=33% Similarity=0.466 Sum_probs=40.1 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH Q ss_conf 101899999998889999889999999999873399---9999999889989865 Q T0605 18 RGSLRDLQYALQEKIEELRQRDALIDELELELDQKD---ELIQMLQNELDKYRSV 69 (72) Q Consensus 18 ~gslrdLq~aL~~K~eElr~rDe~I~~LE~ELdeKD---~lIr~LqnELDKyRsv 69 (72) .--+.+|+.-|...-+.|...++-++.++.++.... +-|..|+.+++.|++- T Consensus 23 ~~ei~~Lq~qL~~~ee~L~~~~~~l~~l~e~~~~~~e~~e~~~~Lq~q~e~l~~~ 77 (110) T 2v4h_A 23 SMQLEDLRQQLQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKAD 77 (110) T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999999999999999989999999999999999989 No 11 >2pms_C Pneumococcal surface protein A (PSPA); lactoferrin, protein- protein complex, metal transport, hydrolase; HET: NAG; 2.91A {Streptococcus pneumoniae} SCOP: h.4.19.1 Probab=34.51 E-value=23 Score=16.56 Aligned_cols=35 Identities=20% Similarity=0.221 Sum_probs=24.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99988999999999987339999999998899898 Q T0605 33 EELRQRDALIDELELELDQKDELIQMLQNELDKYR 67 (72) Q Consensus 33 eElr~rDe~I~~LE~ELdeKD~lIr~LqnELDKyR 67 (72) ..+...+..+..++.++.+..+-|..++.+|++-+ T Consensus 89 ~~~~~~~~~~~~l~~~l~e~~~~l~~~~~eL~~~~ 123 (125) T 2pms_C 89 ENNNVEDYFKEGLEKTIAAKKAELEKTEADLKKAV 123 (125) T ss_dssp C----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 98999999999999999999999999999999764 No 12 >1use_A VAsp, vasodilator-stimulated phosphoprotein; signaling protein, null; 1.3A {Homo sapiens} SCOP: h.1.29.1 PDB: 1usd_A Probab=33.60 E-value=27 Score=16.13 Aligned_cols=29 Identities=34% Similarity=0.541 Sum_probs=17.5 Q ss_pred HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH Q ss_conf 99999988899998-----899999999998733 Q T0605 23 DLQYALQEKIEELR-----QRDALIDELELELDQ 51 (72) Q Consensus 23 dLq~aL~~K~eElr-----~rDe~I~~LE~ELde 51 (72) |+.++-|+-++|.+ .|+|+|++.-+||.. T Consensus 8 d~~r~KQeiLeEvrkEL~KvKeEiIda~~qEL~k 41 (45) T 1use_A 8 DLQRVKQELLEEVKKELQKVKEEIIEAFVQELRK 41 (45) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 2889999999999999999899999999999850 No 13 >2gzd_C RAB11 family-interacting protein 2; G protein folds, A-helical coiled coil, protein transport; HET: GTP; 2.44A {Homo sapiens} SCOP: h.1.31.1 PDB: 2gzh_B* 2k6s_A Probab=33.51 E-value=20 Score=16.96 Aligned_cols=32 Identities=25% Similarity=0.348 Sum_probs=23.1 Q ss_pred HHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8899999999---9987339999999998899898 Q T0605 36 RQRDALIDEL---ELELDQKDELIQMLQNELDKYR 67 (72) Q Consensus 36 r~rDe~I~~L---E~ELdeKD~lIr~LqnELDKyR 67 (72) .-+||+|+++ +.+|..||.-|+-|..-||..- T Consensus 46 lt~eELi~l~lk~~~~l~~k~~~vkELEdYiD~LL 80 (107) T 2gzd_C 46 LTYEEVLQELVKHKELLRRKDTHIRELEDYIDNLL 80 (107) T ss_dssp -----------------CCHHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 68999999999999999998999999999999999 No 14 >1lwu_C Fibrinogen gamma chain; coiled coil, heterotrimer, protein-peptide complex, blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A {Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB: 1n73_C* Probab=31.73 E-value=29 Score=15.95 Aligned_cols=51 Identities=18% Similarity=0.162 Sum_probs=32.9 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 189999999888999988999999999987339999999998899898651 Q T0605 20 SLRDLQYALQEKIEELRQRDALIDELELELDQKDELIQMLQNELDKYRSVI 70 (72) Q Consensus 20 slrdLq~aL~~K~eElr~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRsvv 70 (72) +++.|+--....-..+...++.|+.|+..+.....+|..|+.+|...++.+ T Consensus 6 ~i~~l~e~i~~l~~~~~~~~~~i~~l~~~~~~~~~~i~~l~~~i~~l~~~~ 56 (323) T 1lwu_C 6 TVQKILEEVRILEQIGVSHDAQIQELSEMWRVNQQFVTRLQQQLVDIRQTC 56 (323) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999998876899999999999999999999999999999976 No 15 >2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1 Probab=30.88 E-value=29 Score=15.89 Aligned_cols=38 Identities=26% Similarity=0.326 Sum_probs=23.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99988999999999987339999999998899898651 Q T0605 33 EELRQRDALIDELELELDQKDELIQMLQNELDKYRSVI 70 (72) Q Consensus 33 eElr~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRsvv 70 (72) .++......++.++..+.+..+.|..|+.+|..+++++ T Consensus 96 ~~~~~~~~~~~~l~~~l~~~~~~l~~le~el~~Lk~~l 133 (135) T 2e7s_A 96 MEKYAIEILNKRLTEQLREKDMLLDTLTLQLKNLKKVM 133 (135) T ss_dssp HHHHHHHHHHHHHHHTTTHHHHCC-------------- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999999999999999999999999774 No 16 >1n6m_A Claret segregational protein; NCD, microtubule, motor, kinesin, cell cycle; HET: ADP; 2.50A {Drosophila melanogaster} SCOP: c.37.1.9 PDB: 2ncd_A* 1cz7_A* Probab=26.62 E-value=35 Score=15.41 Aligned_cols=33 Identities=21% Similarity=0.184 Sum_probs=24.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 889999999999873399999999988998986 Q T0605 36 RQRDALIDELELELDQKDELIQMLQNELDKYRS 68 (72) Q Consensus 36 r~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRs 68 (72) .+...-++.++..|.+.....|.|+|+|--.|. T Consensus 24 ~~~~~~~~~~~~~~~~~~~~rr~l~n~~~elkG 56 (409) T 1n6m_A 24 EQQAAELETCKEQLFQSNMERKELHNTVMDLRG 56 (409) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 999999999999999999999997505600078 No 17 >3euh_A Protein KICB, chromosome partition protein MUKF; chromosome condensation, condensin, non-SMC subunit, kleisin, calcium, cell cycle, cell division; 2.90A {Escherichia coli} Probab=26.09 E-value=36 Score=15.35 Aligned_cols=54 Identities=31% Similarity=0.357 Sum_probs=38.7 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 1110189999999888999988999999999---98733999999999889989865 Q T0605 16 EGRGSLRDLQYALQEKIEELRQRDALIDELE---LELDQKDELIQMLQNELDKYRSV 69 (72) Q Consensus 16 ~~~gslrdLq~aL~~K~eElr~rDe~I~~LE---~ELdeKD~lIr~LqnELDKyRsv 69 (72) |--||+||||-.|+-.-..+-.-=..|+.-- -++.--|.+|.-||+-||+-.|- T Consensus 210 EtsgtLRELqdtL~aagD~lq~qLl~IQ~~~~~~~~l~~vd~l~~~Lq~kLDRI~sW 266 (440) T 3euh_A 210 ETSGTLRELQDTLEAAGDKLQANLLRIQDATMTHDDLHFVDRLVFDLQSKLDRIISW 266 (440) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSCGGGTTTHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 998789999999997278999999999999845770789999999999999999999 No 18 >1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: h.1.8.1 PDB: 1ei3_A Probab=25.57 E-value=37 Score=15.29 Aligned_cols=33 Identities=12% Similarity=0.117 Sum_probs=19.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 889999999999873399999999988998986 Q T0605 36 RQRDALIDELELELDQKDELIQMLQNELDKYRS 68 (72) Q Consensus 36 r~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRs 68 (72) ......|..|+..+.+...-|+.|+.++|.... T Consensus 128 ~~~~~~i~~L~~~~~~~~~ei~~le~~~~~~~~ 160 (491) T 1m1j_A 128 ATQVNRIKALQNSIQEQVVEMKRLEVDIDIKIR 160 (491) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999999999999999 No 19 >1t6f_A Geminin; coiled-coil, cell cycle; 1.47A {Synthetic} SCOP: h.1.28.1 Probab=24.62 E-value=39 Score=15.18 Aligned_cols=24 Identities=33% Similarity=0.437 Sum_probs=17.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999987339999999998899898 Q T0605 44 ELELELDQKDELIQMLQNELDKYR 67 (72) Q Consensus 44 ~LE~ELdeKD~lIr~LqnELDKyR 67 (72) -|-+|.+.||.-|-+|..|-+-.- T Consensus 11 klhkeie~kd~eia~lk~en~el~ 34 (37) T 1t6f_A 11 KLHKEIEQKDNEIARLKKENKELA 34 (37) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999861389999998229888 No 20 >2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding, eukaryotic regulatory protein, transcription/DNA complex; HET: DNA; 2.20A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* Probab=24.43 E-value=39 Score=15.16 Aligned_cols=33 Identities=15% Similarity=0.236 Sum_probs=26.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999987339999999998899898651 Q T0605 38 RDALIDELELELDQKDELIQMLQNELDKYRSVI 70 (72) Q Consensus 38 rDe~I~~LE~ELdeKD~lIr~LqnELDKyRsvv 70 (72) +-+.|..||..+.+--.-...|..|++.+++.| T Consensus 28 Kk~~~~~Le~~v~~L~~en~~L~~e~~~Lr~~l 60 (63) T 2dgc_A 28 KLQRMKQLEDKVEELLSKNYHLENEVARLKKLV 60 (63) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999999999999978 No 21 >2akf_A Coronin-1A; coiled coil, protein binding; 1.20A {Synthetic} Probab=24.19 E-value=39 Score=15.13 Aligned_cols=26 Identities=27% Similarity=0.515 Sum_probs=15.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99987339999999998899898651 Q T0605 45 LELELDQKDELIQMLQNELDKYRSVI 70 (72) Q Consensus 45 LE~ELdeKD~lIr~LqnELDKyRsvv 70 (72) ||-|+..-.++.|.||.-+|+.-..| T Consensus 4 leee~r~l~a~vq~lq~rldrleetv 29 (32) T 2akf_A 4 LEEDVRNLNAIVQKLQERLDRLEETV 29 (32) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 88999999999999999999999877 No 22 >1vcs_A Vesicle transport through interaction with T- snares homolog 1A; HABC domain, VTI1, UP and DOWN three helix bundle, LEFT-handed twist; NMR {Mus musculus} SCOP: a.47.2.1 Probab=23.21 E-value=41 Score=15.02 Aligned_cols=26 Identities=19% Similarity=0.505 Sum_probs=15.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 89999999999873399999999988 Q T0605 37 QRDALIDELELELDQKDELIQMLQNE 62 (72) Q Consensus 37 ~rDe~I~~LE~ELdeKD~lIr~LqnE 62 (72) +|...|...|..|++-+++|+.+..| T Consensus 35 erk~~l~~ie~~leEA~eLl~qMelE 60 (102) T 1vcs_A 35 EKKQMVANVEKQLEEARELLEQMDLE 60 (102) T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 78999999998689999999999999 No 23 >1oxj_A RNA-binding protein smaug; SAM domain, PHAT domain; 1.80A {Drosophila melanogaster} SCOP: a.60.1.2 a.118.1.13 Probab=22.56 E-value=42 Score=14.94 Aligned_cols=44 Identities=18% Similarity=0.342 Sum_probs=34.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999888999988999999999987339999999998899898651 Q T0605 24 LQYALQEKIEELRQRDALIDELELELDQKDELIQMLQNELDKYRSVI 70 (72) Q Consensus 24 Lq~aL~~K~eElr~rDe~I~~LE~ELdeKD~lIr~LqnELDKyRsvv 70 (72) -+.-+-..+..+++|-.+...+|+++-..- ..|.+.|+.+++|+ T Consensus 51 hRkKIl~aI~~Lker~~~l~~~e~~~~~~~---~~l~~~l~~l~~i~ 94 (173) T 1oxj_A 51 ASHKLALCIDKLKERANILNRVEQELLSGQ---MELSTAVEELTNIV 94 (173) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTTC---SCHHHHHHHHHTTT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCH---HHHHHHHHHHHHHH T ss_conf 799999999999988999999999986030---23678999868997 No 24 >3m0d_C TNF receptor-associated factor 1; trimeric helix coiled coiled, acetylation, alternative splic apoptosis, coiled coil, cytoplasm; 2.80A {Homo sapiens} Probab=22.44 E-value=43 Score=14.93 Aligned_cols=24 Identities=8% Similarity=0.199 Sum_probs=8.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999873399999999988 Q T0605 39 DALIDELELELDQKDELIQMLQNE 62 (72) Q Consensus 39 De~I~~LE~ELdeKD~lIr~LqnE 62 (72) +.+|.+|-.|.+.-...++-++-+ T Consensus 19 E~IV~VLNrEVE~~~~tv~a~~rq 42 (65) T 3m0d_C 19 ENIVAVLNKEVEASHLALATSIHQ 42 (65) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999827889999988 No 25 >3fx0_A NF-kappa-B essential modulator; coiled-coil, coiled coil, cytoplasm, disease mutation, ectodermal dysplasia, HOST-virus interaction; 3.20A {Homo sapiens} Probab=20.35 E-value=17 Score=17.26 Aligned_cols=48 Identities=31% Similarity=0.486 Sum_probs=25.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH Q ss_conf 99999998889999889999999999873399---9999999889989865 Q T0605 22 RDLQYALQEKIEELRQRDALIDELELELDQKD---ELIQMLQNELDKYRSV 69 (72) Q Consensus 22 rdLq~aL~~K~eElr~rDe~I~~LE~ELdeKD---~lIr~LqnELDKyRsv 69 (72) .+|+--|...-+-+..+.+.|+.|-.+...+. ++|-.|+-+.|-|++= T Consensus 20 ~~L~~~L~~AEeal~~kq~~id~lke~~~q~~~~~Eti~vLkaQ~dIY~~D 70 (96) T 3fx0_A 20 EDLKQQLQQAEEALVAKQEVIDKLKEEAEQHKIVMETVPVLKAQADIYKAD 70 (96) T ss_dssp ------CCSSTTTTTTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999989999999999998898887789999999999988 No 26 >2p4f_A Similar to SP|P32453 saccharomyces cerevisiae YNL315C ATP11; half barrel, chaperone; HET: P6G; 1.40A {Candida glabrata cbs 138} Probab=20.13 E-value=17 Score=17.35 Aligned_cols=34 Identities=35% Similarity=0.453 Sum_probs=26.6 Q ss_pred CHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 0110111018999999988899998899999999 Q T0605 12 MASIEGRGSLRDLQYALQEKIEELRQRDALIDEL 45 (72) Q Consensus 12 ~~~~~~~gslrdLq~aL~~K~eElr~rDe~I~~L 45 (72) -|--+|-.|+-+|+-++.+|+++.+.....|+-+ T Consensus 24 kAkeeG~~sieeLk~~~~dki~~~~~~~~~~~p~ 57 (299) T 2p4f_A 24 KAKAEGVESIEELKKRLADQIEEKKKELNKIDPL 57 (299) T ss_dssp ---------------------------------- T ss_pred HHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 9997388789999999999999998652357888 No 27 >3eh0_A UDP-3-O-[3-hydroxymyristoyl] glucosamine N- acyltransferase; LPXD, LEFT-handed parallel beta helix, acyl carrier protein, antibiotic resistance; 2.60A {Escherichia coli} Probab=20.10 E-value=46 Score=14.74 Aligned_cols=22 Identities=23% Similarity=0.451 Sum_probs=14.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8889999889999999999873399 Q T0605 29 QEKIEELRQRDALIDELELELDQKD 53 (72) Q Consensus 29 ~~K~eElr~rDe~I~~LE~ELdeKD 53 (72) -.++.++. +.++.||++++++| T Consensus 320 ~~~l~~~~---~~~k~l~~~~~~~d 341 (341) T 3eh0_A 320 VMNIDDMS---KRLKSLERKVNQQD 341 (341) T ss_dssp HHTHHHHH---HHHHHHHHHHTTCC T ss_pred HHHHHHHH---HHHHHHHHHHHCCC T ss_conf 86389999---99999998753579 No 28 >2e5n_A RNA polymerase II elongation factor ELL2; ELL_N2 domain, structural genomics, NPPSFA; NMR {Homo sapiens} Probab=20.00 E-value=48 Score=14.62 Aligned_cols=35 Identities=29% Similarity=0.440 Sum_probs=26.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHC Q ss_conf 8999999999987339999999998------8998986515 Q T0605 37 QRDALIDELELELDQKDELIQMLQN------ELDKYRSVIR 71 (72) Q Consensus 37 ~rDe~I~~LE~ELdeKD~lIr~Lqn------ELDKyRsvvr 71 (72) -||.+|-.|-+--=.|-+++.+|+. +-+.+.+|++ T Consensus 14 ~ReRvIHLLALkpykkpEL~~rL~kDg~~~~D~~~l~~iL~ 54 (100) T 2e5n_A 14 YRDRVIHLLALKAYKKPELLARLQKDGVNQKDKNSLGAILQ 54 (100) T ss_dssp HHHHHHHHHHHSCBCHHHHHHHHHHHCCCHHHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHH T ss_conf 89999999982767739999999873797778998999999 Done!