Query gi|254781077|ref|YP_003065490.1| hypothetical protein CLIBASIA_04895 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 111 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 21:10:28 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781077.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >3ecf_A NTF2-like protein; YP_ 38.2 17 0.00051 17.9 1.8 35 28-62 74-108 (130) 2 >1dsk_A VPR protein; viral pep 35.7 12 0.00036 18.8 0.7 24 72-95 1-28 (28) 3 >1q8h_A Osteocalcin; helix-tur 26.6 17 0.00051 17.9 0.2 13 18-30 7-19 (49) 4 >2g8g_A Capsid; adeno-associat 26.0 21 0.00063 17.4 0.6 25 14-42 8-32 (55) 5 >1s29_A LA protein; winged hel 20.1 17 0.0005 18.0 -0.9 40 55-109 21-60 (92) 6 >2c7h_A RBBP6, retinoblastoma- 15.6 74 0.0022 14.3 1.5 29 29-61 6-34 (86) 7 >2fst_X Mitogen-activated prot 15.2 64 0.0019 14.6 1.1 17 87-103 3-19 (50) 8 >1bde_A VPR protein; AIDS, HIV 15.0 52 0.0015 15.2 0.6 20 71-90 9-32 (33) 9 >1p1j_A Inositol-3-phosphate s 13.7 97 0.0029 13.6 1.7 50 27-80 72-121 (137) 10 >2cqk_A C-MPL binding protein; 12.7 30 0.00088 16.6 -1.2 38 55-109 25-62 (101) No 1 >>3ecf_A NTF2-like protein; YP_324687.1, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 1.90A {Anabaena variabilis atcc 29413} (A:) Probab=38.17 E-value=17 Score=17.94 Aligned_cols=35 Identities=31% Similarity=0.286 Sum_probs=25.0 Q ss_pred CCCCEEEEEEEEEEEEEEEEEEEEECCCCCCCCCC Q ss_conf 54300002100000435540033122045610054 Q gi|254781077|r 28 EDSSLFYHFHSTLNLMTLHLPLRLQEEGISQSNLR 62 (111) Q Consensus 28 edsslfyhfhstlnlmtlhlplrlqeegisqsnlr 62 (111) ..|++|---...-.+.|+|--.|+.|||||----- T Consensus 74 rAS~v~q~rTTKG~ly~~~nfF~~DEeGis~iWP~ 108 (130) T 3ecf_A 74 RASGVWQXRTTKGTLYTLHNFFRLDEEGIVYVWPX 108 (130) T ss_dssp EEEEEEEEEETTSCEEEEEEEEEEETTEEEEEECC T ss_pred CCCCEEEEEECCCEEEEEEEHHEECCCCEEEEEEC T ss_conf 76531788742634887610113263671899742 No 2 >>1dsk_A VPR protein; viral peptide, polypeptide; NMR {Human immunodeficiency virus type 1} (A:) Probab=35.71 E-value=12 Score=18.79 Aligned_cols=24 Identities=54% Similarity=0.714 Sum_probs=16.2 Q ss_pred HHHHHHHHHHH----CCCCHHHHHHHHH Q ss_conf 07789987410----0000455566676 Q gi|254781077|r 72 AITPILQMLDL----TNCRHSRVNQWRQ 95 (111) Q Consensus 72 aitpilqmldl----tncrhsrvnqwrq 95 (111) ||.-+||-|-. -.|+|||....+| T Consensus 1 AiiriLQqllfiHFRiGC~HSrIGi~~q 28 (28) T 1dsk_A 1 AIIRILQQLLFIHFRIGCRHSRIGVTRQ 28 (28) T ss_dssp CHHHHHHHHHHHHHHHHHTTTTGGGSCC T ss_pred CHHHHHHHHHHHHEECCCCCCCCCCCCC T ss_conf 9889999998986021563042021469 No 3 >>1q8h_A Osteocalcin; helix-turn-helix-turn-helix, paper-CLIP, hydroxyapatite crystal surface binding protein, calcium binding protein, bone GLA protein; HET: CGU; 2.00A {Sus scrofa} (A:) Probab=26.57 E-value=17 Score=17.92 Aligned_cols=13 Identities=54% Similarity=0.955 Sum_probs=10.0 Q ss_pred CCCCCCCCCCCCC Q ss_conf 6774478876543 Q gi|254781077|r 18 NIPACYPDPLEDS 30 (111) Q Consensus 18 nipacypdpleds 30 (111) ..||-||||||.. T Consensus 7 ga~ap~pdPlE~~ 19 (49) T 1q8h_A 7 GAPAPYPDPLXPR 19 (49) T ss_dssp ------CCTTHHH T ss_pred CCCCCCCCCCHHH T ss_conf 8998989952024 No 4 >>2g8g_A Capsid; adeno-associated virus serotype 4, gene therapy, icosahedral virus; HET: D5M; 3.20A {Adeno-associated virus - 4} (A:271-325) Probab=26.02 E-value=21 Score=17.40 Aligned_cols=25 Identities=48% Similarity=0.582 Sum_probs=19.4 Q ss_pred CCCCCCCCCCCCCCCCCCEEEEEEEEEEE Q ss_conf 76666774478876543000021000004 Q gi|254781077|r 14 GINYNIPACYPDPLEDSSLFYHFHSTLNL 42 (111) Q Consensus 14 ginynipacypdpledsslfyhfhstlnl 42 (111) .-||.|||.-- |+-|-|.-|+|||- T Consensus 8 ~qnykipa~g~----~sllky~th~tl~g 32 (55) T 2g8g_A 8 NQNYKIPATGS----DSLIKYETHSTLDG 32 (55) T ss_dssp GGSCCCCSSST----TCHHHHSCEEEETT T ss_pred CCCCCCCCCCC----CCCEEEEECCCCCC T ss_conf 76541234688----75124430243367 No 5 >>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} (A:) Probab=20.10 E-value=17 Score=17.96 Aligned_cols=40 Identities=15% Similarity=0.319 Sum_probs=27.1 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHEECC Q ss_conf 4561005410013354007789987410000045556667686543223210004 Q gi|254781077|r 55 GISQSNLRTDHNVKQHVAITPILQMLDLTNCRHSRVNQWRQISNIIGYKKIKRIN 109 (111) Q Consensus 55 gisqsnlrtdhnvkqhvaitpilqmldltncrhsrvnqwrqisniigykkikrin 109 (111) -.|.+||+.|.-..+++.- .-++|-.|+.|.+++|||.+. T Consensus 21 YFSd~NL~~D~fL~~~~~~---------------~~~g~V~i~~i~~F~kik~l~ 60 (92) T 1s29_A 21 YFSDVNVQRDIFLKGKXAE---------------NAEGFVSLETLLTFKRVNSVT 60 (92) T ss_dssp HTSHHHHTTCHHHHHHHTT---------------STTCCEEHHHHTTSHHHHTTC T ss_pred HCCHHHHCCCHHHHHHHHC---------------CCCCCEEHHHHHCCCCHHHHC T ss_conf 7367441328999999836---------------689869659986784788874 No 6 >>2c7h_A RBBP6, retinoblastoma-binding protein 6, isoform 3; P53-associated, mRNA processing, splicing-associated, oesophageal cancer; NMR {Homo sapiens} (A:) Probab=15.55 E-value=74 Score=14.26 Aligned_cols=29 Identities=34% Similarity=0.398 Sum_probs=20.6 Q ss_pred CCCEEEEEEEEEEEEEEEEEEEEECCCCCCCCC Q ss_conf 430000210000043554003312204561005 Q gi|254781077|r 29 DSSLFYHFHSTLNLMTLHLPLRLQEEGISQSNL 61 (111) Q Consensus 29 dsslfyhfhstlnlmtlhlplrlqeegisqsnl 61 (111) -|+.||.|.|..+.-++..+ ..+||-+.| T Consensus 6 mSsV~YKFkS~k~~~~i~fd----G~~Isv~dL 34 (86) T 2c7h_A 6 MSCVHYKFSSKLNYDTVTFD----GLHISLCDL 34 (86) T ss_dssp BEEEEEEETTCSSEEEEEES----SSEEEHHHH T ss_pred EEEEEEEEECCCCCCEEEEC----CCEEEHHHH T ss_conf 73799997026875168875----985899999 No 7 >>2fst_X Mitogen-activated protein kinase 14; active mutants, lipids, MAP kinase insertion, autophosphorylation, transferase; HET: BOG; 1.45A {Homo sapiens} PDB: 2fso_X* 2fsl_X* 2fsm_X* 2npq_A* 2bal_A* 2baj_A* 2bak_A* 2baq_A* 2qd9_A* 1ian_A* 2rg5_A* 2rg6_A* 3bv2_A* 3bv3_A* 3bx5_A* 3c5u_A* 3cg2_A* 2oza_B 2ewa_A* 1bl6_A* ... (X:231-280) Probab=15.17 E-value=64 Score=14.64 Aligned_cols=17 Identities=18% Similarity=0.421 Sum_probs=13.3 Q ss_pred HHHHHHHHHHHHHHHHH Q ss_conf 45556667686543223 Q gi|254781077|r 87 HSRVNQWRQISNIIGYK 103 (111) Q Consensus 87 hsrvnqwrqisniigyk 103 (111) .+.++||+.|-+++|-- T Consensus 3 ~d~~~Ql~~I~~vlGtP 19 (50) T 2fst_X 3 TDHIDQLKLILRLVGTP 19 (50) T ss_dssp SSHHHHHHHHHHHHCSC T ss_pred CCHHHHHHHHHHHCCCC T ss_conf 99899999999730799 No 8 >>1bde_A VPR protein; AIDS, HIV, viral protein, VPR fragment, helix; NMR {Synthetic} (A:) Probab=14.98 E-value=52 Score=15.17 Aligned_cols=20 Identities=55% Similarity=0.778 Sum_probs=13.8 Q ss_pred HHHHHHHHHHHHC----CCCHHHH Q ss_conf 0077899874100----0004555 Q gi|254781077|r 71 VAITPILQMLDLT----NCRHSRV 90 (111) Q Consensus 71 vaitpilqmldlt----ncrhsrv 90 (111) -||..|||-+-.. .|+|||. T Consensus 9 ~aiiriLQqlLfiHfRiGC~hSRI 32 (33) T 1bde_A 9 EAIIRILQQLLFIHFRIGCRHSRI 32 (33) T ss_dssp HHHHHHHHHHHHHHHHHHHHHSCC T ss_pred HHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 999999999999998625654768 No 9 >>1p1j_A Inositol-3-phosphate synthase; 1L-MYO-inositol 1-phosphate, NADH, isomerase, rossmann fold; HET: NAI; 1.70A {Saccharomyces cerevisiae} (A:1-62,A:459-533) Probab=13.66 E-value=97 Score=13.60 Aligned_cols=50 Identities=28% Similarity=0.374 Sum_probs=38.5 Q ss_pred CCCCCEEEEEEEEEEEEEEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 654300002100000435540033122045610054100133540077899874 Q gi|254781077|r 27 LEDSSLFYHFHSTLNLMTLHLPLRLQEEGISQSNLRTDHNVKQHVAITPILQML 80 (111) Q Consensus 27 ledsslfyhfhstlnlmtlhlplrlqeegisqsnlrtdhnvkqhvaitpilqml 80 (111) -++.+-|-+|||-|.++..-+---|-..|..-.|- --||.-||.-|+..+ T Consensus 72 ~~~~~~~~~f~sVlSlLSYllKAPlvp~GtpvVNa----L~kQRaaleNilRac 121 (137) T 1p1j_A 72 KEDAGKFENFYPVLTFLSYWLKAPLTRPGFHPVNG----LNKQRTALENFLRLL 121 (137) T ss_dssp BTTCSCCBCCCSBCGGGGGGBSSCCCCTTCCCCCC----HHHHHHHHHHHHHHH T ss_pred CCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCH----HHHHHHHHHHHHHHH T ss_conf 33300014541188898988148899899876414----789999999999998 No 10 >>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} (A:) Probab=12.69 E-value=30 Score=16.55 Aligned_cols=38 Identities=21% Similarity=0.340 Sum_probs=23.6 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHEECC Q ss_conf 4561005410013354007789987410000045556667686543223210004 Q gi|254781077|r 55 GISQSNLRTDHNVKQHVAITPILQMLDLTNCRHSRVNQWRQISNIIGYKKIKRIN 109 (111) Q Consensus 55 gisqsnlrtdhnvkqhvaitpilqmldltncrhsrvnqwrqisniigykkikrin 109 (111) =.|.+||+.|.-..+++ .-..|--|+.|.++++||.+. T Consensus 25 YFSd~NL~~D~fLr~~m-----------------~~dg~Vpi~~i~~F~rik~l~ 62 (101) T 2cqk_A 25 CFSRENLSKDLYLISQM-----------------DSDQFIPIWTVANMEEIKKLT 62 (101) T ss_dssp HTSHHHHHHCHHHHHHS-----------------CTTSCEEHHHHHHCHHHHHHC T ss_pred HCCHHHHCCCHHHHHHH-----------------CCCCCEEHHHHHCCHHHHHHC T ss_conf 75896627298999975-----------------379989669986765899876 Done!