Query gi|254780890|ref|YP_003065303.1| hypothetical protein CLIBASIA_03935 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 104 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Tue May 31 21:57:03 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780890.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3hhc_A Interleukin-28B; interf 30.4 28 0.0012 15.3 2.6 77 13-96 49-129 (196) 2 1skv_A ORF D-63, hypothetical 12.4 72 0.003 13.0 1.6 11 5-15 5-15 (69) 3 2xa6_A KH domain-containing\,R 6.2 1.3E+02 0.0056 11.6 1.7 19 12-30 20-38 (41) 4 2kdu_B MUNC13-1, protein UNC-1 5.8 1.4E+02 0.0059 11.4 0.8 14 16-29 11-24 (36) 5 1z9e_A PC4 and SFRS1 interacti 4.3 1.7E+02 0.007 11.0 0.3 43 25-67 50-92 (127) 6 2h2m_A Protein MURR1, COMM dom 3.9 1.7E+02 0.0073 10.9 0.1 33 1-35 23-56 (108) 7 2b4j_C PC4 and SFRS1 interacti 3.8 1.8E+02 0.0077 10.8 0.1 39 26-64 51-89 (98) 8 2ca5_A MXIH; transport protein 3.5 2.1E+02 0.0088 10.5 0.9 26 63-88 55-80 (85) 9 2jow_A Protein PRGI; needle pr 3.4 2.1E+02 0.009 10.4 2.3 26 63-88 52-77 (83) 10 2nrg_A Intrinsic membrane prot 3.2 1.1E+02 0.0046 12.0 -1.4 24 63-86 2-25 (82) No 1 >3hhc_A Interleukin-28B; interferon, IL-22, antiviral, antiviral defense, cytokine, secreted; 2.80A {Homo sapiens} Probab=30.41 E-value=28 Score=15.34 Aligned_cols=77 Identities=21% Similarity=0.241 Sum_probs=47.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHEEEE----EEEHHHHHHHHHHHCCCHHHHHHHHHCCCCCHHHHHHHHHH Q ss_conf 25533556775888899851002479642222010----00101244246420563578999975164330369999999 Q gi|254780890|r 13 ESEVVHNIRLQIEEISAILSKKSRDTPNQEIRTKI----YIITARIIALIVFREGEKSLIFDLLRTNQKTNSSLTQAIIQ 88 (104) Q Consensus 13 esevvhnirlqieeisailskksrdtpnqeirtki----yiitariialivfregekslifdllrtnqktnssltqaiiq 88 (104) |-+.+...+-..||.. +-|.+.-...-.+.+- .-.-.|.+| -|.|-.|-.+.|..-..+||+|...+-| T Consensus 49 El~Afk~akda~Eesl---~lk~~~C~srlF~r~~dl~~Lqv~eRpva----leAEl~LTlkVL~~~adt~s~L~~~L~Q 121 (196) T 3hhc_A 49 ELQAFKRAKDALEESL---LLKDCKCRSRLFPRTWDLRQLQVRERPVA----LEAELALTLKVLEATADTDPALGDVLDQ 121 (196) T ss_dssp HHHHHHHHHHHHHHHH---HTSSCCBSSCSSCTTCCGGGSCGGGHHHH----HHHHHHHHHHHHHHHHHHCHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHC---CCCCCCCCCCCCCCCCCHHHCCHHHHHHH----HHHHHHHHHHHHHHHCCCCCHHHHHHHH T ss_conf 9999999999987311---46787766667899959887411110689----9999999999999714454158899875 Q ss_pred HHHHHHHH Q ss_conf 99989997 Q gi|254780890|r 89 EIDTLQHQ 96 (104) Q Consensus 89 eidtlqhq 96 (104) -..||.|- T Consensus 122 PL~tL~hI 129 (196) T 3hhc_A 122 PLHTLHHI 129 (196) T ss_dssp HHHHHHHH T ss_pred HHHHHHHH T ss_conf 79999999 No 2 >1skv_A ORF D-63, hypothetical 7.5 kDa protein; sulfolobus spindle virus, SSV, archaeal, crenarchaeal, helix-turn-helix, four helix bundle; 2.60A {Sulfolobus virus 1} SCOP: a.30.5.1 Probab=12.43 E-value=72 Score=13.03 Aligned_cols=11 Identities=36% Similarity=0.359 Sum_probs=7.7 Q ss_pred CCHHHHHHHHH Q ss_conf 40031232255 Q gi|254780890|r 5 SREKEVFLESE 15 (104) Q Consensus 5 srekevflese 15 (104) -.|||.|++-. T Consensus 5 vsekeLfleLD 15 (69) T 1skv_A 5 VLEKELFEMLD 15 (69) T ss_dssp HHHHHHHHHHH T ss_pred HHHHHHHHHHH T ss_conf 30889999986 No 3 >2xa6_A KH domain-containing\,RNA-binding\,signal transduction-associated protein 1; transcription, STAR proteins, CD44, cell cycle; NMR {Homo sapiens} Probab=6.16 E-value=1.3e+02 Score=11.57 Aligned_cols=19 Identities=32% Similarity=0.532 Sum_probs=13.9 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 2255335567758888998 Q gi|254780890|r 12 LESEVVHNIRLQIEEISAI 30 (104) Q Consensus 12 lesevvhnirlqieeisai 30 (104) |.+..||..||--+||..+ T Consensus 20 LDpSF~HA~rLl~~EIek~ 38 (41) T 2xa6_A 20 LDPSFTHAMQLLTAEIEKI 38 (41) T ss_dssp SCTTCHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHHHH T ss_conf 6779999999999999987 No 4 >2kdu_B MUNC13-1, protein UNC-13 homolog A; calmodulin, calcium, acetylation, methylation, alternative splicing, cell junction, cell membrane, coiled coil; NMR {Xenopus laevis} Probab=5.78 E-value=1.4e+02 Score=11.44 Aligned_cols=14 Identities=21% Similarity=0.551 Sum_probs=10.3 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 33556775888899 Q gi|254780890|r 16 VVHNIRLQIEEISA 29 (104) Q Consensus 16 vvhnirlqieeisa 29 (104) ++...|||+.|+.. T Consensus 11 a~nKVRlQLQE~~~ 24 (36) T 2kdu_B 11 AFNKVRMQLQEARG 24 (36) T ss_dssp HHHHHHHHHHHHTT T ss_pred HHHHHHHHHHHHCC T ss_conf 99999999997126 No 5 >1z9e_A PC4 and SFRS1 interacting protein 2; heat repeat-like, ledgf, protein binding/transcription complex; NMR {Homo sapiens} SCOP: a.48.4.1 Probab=4.33 E-value=1.7e+02 Score=11.01 Aligned_cols=43 Identities=21% Similarity=0.273 Sum_probs=32.1 Q ss_pred HHHHHHHHHCCCCCCCHHHEEEEEEEHHHHHHHHHHHCCCHHH Q ss_conf 8889985100247964222201000101244246420563578 Q gi|254780890|r 25 EEISAILSKKSRDTPNQEIRTKIYIITARIIALIVFREGEKSL 67 (104) Q Consensus 25 eeisailskksrdtpnqeirtkiyiitariialivfregeksl 67 (104) -++-..+-|-.|-..|++||.|--.+-.+.-.+....+|+-.+ T Consensus 50 ~e~V~TiKKlRrYkgn~~Ir~KA~~lY~kfK~~f~~~eg~s~~ 92 (127) T 1z9e_A 50 TEMITTLKKIRRFKVSQVIMEKSTMLYNKFKNMFLVGEGDSVI 92 (127) T ss_dssp HHHHHHHHHHTTCTTCSSHHHHHHHHHHHHHHHHHC------- T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 5999999999994351999999999999989996144522589 No 6 >2h2m_A Protein MURR1, COMM domain-containing protein 1; all alpha-helical, metal transport; NMR {Homo sapiens} Probab=3.92 E-value=1.7e+02 Score=10.91 Aligned_cols=33 Identities=24% Similarity=0.281 Sum_probs=22.5 Q ss_pred CCCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 972640-03123225533556775888899851002 Q gi|254780890|r 1 MFYDSR-EKEVFLESEVVHNIRLQIEEISAILSKKS 35 (104) Q Consensus 1 mfydsr-ekevflesevvhnirlqieeisailskks 35 (104) |||+.. -.|-||.+++..++ ..||..++++|-. T Consensus 23 ~yy~~seITee~L~~qLype~--~~eEF~~l~~K~~ 56 (108) T 2h2m_A 23 TFHGYPGITEELLRSQLYPEV--PPEEFRPFLAKMR 56 (108) T ss_dssp SSSCCSSCCHHHHHHHHCSSS--CSSTHHHHHTTTS T ss_pred HHCCCCCCHHHHHHHHHCCCC--CHHHHHHHHHHHH T ss_conf 981777451999998754689--9999999999999 No 7 >2b4j_C PC4 and SFRS1 interacting protein; HIV, integration, transcription, viral protein, recombination; 2.02A {Homo sapiens} SCOP: a.48.4.1 PDB: 3f9k_C 3hpg_G 3hph_E Probab=3.78 E-value=1.8e+02 Score=10.80 Aligned_cols=39 Identities=23% Similarity=0.285 Sum_probs=0.0 Q ss_pred HHHHHHHHCCCCCCCHHHEEEEEEEHHHHHHHHHHHCCC Q ss_conf 889985100247964222201000101244246420563 Q gi|254780890|r 26 EISAILSKKSRDTPNQEIRTKIYIITARIIALIVFREGE 64 (104) Q Consensus 26 eisailskksrdtpnqeirtkiyiitariialivfrege 64 (104) ++-..+-|-.|-..|++||.|--.+-.+...+....||+ T Consensus 51 e~V~tiKklRry~gn~~Ir~kA~~lY~kfK~lF~~~eg~ 89 (98) T 2b4j_C 51 EMITTLKKIRRFKVSQVIMEKSTMLYNKFKNMFLVGEGD 89 (98) T ss_dssp HHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHC------- T ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCHH T ss_conf 999999999986360999999999999999997150169 No 8 >2ca5_A MXIH; transport protein, type III secretion system, needle complex, protein transport, virulence; 2.10A {Shigella flexneri} SCOP: a.2.20.1 PDB: 2v6l_0 Probab=3.50 E-value=2.1e+02 Score=10.46 Aligned_cols=26 Identities=19% Similarity=0.203 Sum_probs=0.0 Q ss_pred CCHHHHHHHHHCCCCCHHHHHHHHHH Q ss_conf 63578999975164330369999999 Q gi|254780890|r 63 GEKSLIFDLLRTNQKTNSSLTQAIIQ 88 (104) Q Consensus 63 gekslifdllrtnqktnssltqaiiq 88 (104) +|-++++.+--+--|.-..+-|+||| T Consensus 55 ~ey~l~rNaQS~tiKa~KD~~qaIIq 80 (85) T 2ca5_A 55 SEYTLYRNAQSNTVKVIKDVDAAILE 80 (85) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 89999999999999999999999997 No 9 >2jow_A Protein PRGI; needle protein, transport protein; NMR {Salmonella typhimurium} PDB: 2kv7_A 2x9c_A Probab=3.44 E-value=2.1e+02 Score=10.43 Aligned_cols=26 Identities=19% Similarity=0.204 Sum_probs=0.0 Q ss_pred CCHHHHHHHHHCCCCCHHHHHHHHHH Q ss_conf 63578999975164330369999999 Q gi|254780890|r 63 GEKSLIFDLLRTNQKTNSSLTQAIIQ 88 (104) Q Consensus 63 gekslifdllrtnqktnssltqaiiq 88 (104) +|-+++..+--+--|.-..+.|+||| T Consensus 52 ~ey~l~rNaQSntiKa~KD~~qaIIq 77 (83) T 2jow_A 52 SEYNLYRNAQSNTVKVFKDIDAAILE 77 (83) T ss_dssp HHHHHHHHHTTTGGGTHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999999999999998 No 10 >2nrg_A Intrinsic membrane protein PUFX; BENT transmembrane helix, photosynthesis,membrane protein; NMR {Rhodobacter sphaeroides} Probab=3.21 E-value=1.1e+02 Score=12.02 Aligned_cols=24 Identities=42% Similarity=0.437 Sum_probs=0.0 Q ss_pred CCHHHHHHHHHCCCCCHHHHHHHH Q ss_conf 635789999751643303699999 Q gi|254780890|r 63 GEKSLIFDLLRTNQKTNSSLTQAI 86 (104) Q Consensus 63 gekslifdllrtnqktnssltqai 86 (104) ..|...-|-|.||.|||-.|--|. T Consensus 2 adktif~dhl~tnpktnlrlwvaf 25 (82) T 2nrg_A 2 ADKTIFNDHLNTNPKTNLRLWVAF 25 (82) T ss_dssp CCSSGGGSSSCCCHHHHHHHHHHH T ss_pred CCHHHHHHHHCCCCCCCHHHHHHH T ss_conf 741165544036976431688999 Done!