Query gi|254780492|ref|YP_003064905.1| hypothetical protein CLIBASIA_01895 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 40 No_of_seqs 16 out of 18 Neff 1.7 Searched_HMMs 23785 Date Mon May 30 12:27:04 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780492.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1lwu_C Fibrinogen gamma chain; 22.8 15 0.00062 18.2 0.0 27 10-36 283-311 (323) 2 3ghg_C Fibrinogen gamma chain; 8.8 71 0.003 15.1 0.4 23 11-33 364-388 (411) 3 3ghg_B Fibrinogen beta chain; 6.8 73 0.0031 15.1 -0.3 18 10-27 431-450 (461) 4 1fzc_C Fibrin; blood coagulati 6.7 76 0.0032 15.0 -0.2 24 11-34 277-302 (319) 5 3ira_A Conserved protein; meth 5.1 1.8E+02 0.0077 13.2 1.0 25 9-33 17-41 (173) 6 2fib_A Fibrinogen; fibrinogen, 4.5 1.6E+02 0.0069 13.4 0.4 22 11-32 222-245 (269) 7 1m1j_C Fibrinogen gamma chain; 4.3 1.7E+02 0.0073 13.3 0.4 24 10-33 363-388 (409) 8 2yw8_A RUN and FYVE domain-con 4.2 1.6E+02 0.0066 13.5 0.1 32 5-38 2-33 (82) 9 1m1j_B Fibrinogen beta chain; 3.7 1.5E+02 0.0064 13.6 -0.4 18 10-27 435-454 (464) 10 1lwu_B Fibrinogen beta chain; 3.2 1.4E+02 0.0059 13.7 -0.9 19 11-29 296-316 (323) No 1 >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=22.78 E-value=15 Score=18.21 Aligned_cols=27 Identities=26% Similarity=0.393 Sum_probs=19.5 Q ss_pred HHCCCCCCCCC--CHHHHHHHHCCCCCCC Q ss_conf 21131113420--0012222311333664 Q gi|254780492|r 10 ARKGIWWMPWH--AQAMKDVICCDKLWGA 36 (40) Q Consensus 10 a~Kg~wWMPw~--~eaMKDV~~CdK~rGa 36 (40) ..+||+|++|+ ..++|-|..--+|.|+ T Consensus 283 ~~~GI~W~~w~g~~ysLk~~~M~IRP~~~ 311 (323) T 1lwu_C 283 YDDGIIWATWHDRWYSLKMTTMKLLPMGR 311 (323) T ss_dssp CCCSSEEGGGSCTTCCCSEEEEEEEESSC T ss_pred CCCCEEECCCCCCCCCCEEEEEEEEECCC T ss_conf 89933975579965320579998710888 No 2 >3ghg_C Fibrinogen gamma 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: 1deq_C Probab=8.77 E-value=71 Score=15.11 Aligned_cols=23 Identities=26% Similarity=0.482 Sum_probs=14.9 Q ss_pred HCCCCCCCCCC--HHHHHHHHCCCC Q ss_conf 11311134200--012222311333 Q gi|254780492|r 11 RKGIWWMPWHA--QAMKDVICCDKL 33 (40) Q Consensus 11 ~Kg~wWMPw~~--eaMKDV~~CdK~ 33 (40) ..||+|++|+- .++|-|..--+| T Consensus 364 ~~gi~W~~w~~~~~~lk~~~M~irp 388 (411) T 3ghg_C 364 DNGIIWATWKTRWYSMKKTTMKIIP 388 (411) T ss_dssp CCBSEETTTSCTTBCCSEEEEEEEE T ss_pred CCCEEECCCCCCCCCCCEEEEEECC T ss_conf 9931877678965333058998640 No 3 >3ghg_B Fibrinogen beta 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_B* 1deq_B 2a45_H* Probab=6.77 E-value=73 Score=15.06 Aligned_cols=18 Identities=28% Similarity=0.913 Sum_probs=10.9 Q ss_pred HHCCCCCCCCCC--HHHHHH Q ss_conf 211311134200--012222 Q gi|254780492|r 10 ARKGIWWMPWHA--QAMKDV 27 (40) Q Consensus 10 a~Kg~wWMPw~~--eaMKDV 27 (40) ...||+|+.|+- ..||-| T Consensus 431 ~~~Gi~W~~w~g~~yslk~~ 450 (461) T 3ghg_B 431 TDDGVVWMNWKGSWYSMRKM 450 (461) T ss_dssp SCCSSBCHHHHCTTBCCSCE T ss_pred CCCCEEECCCCCCCCCCCEE T ss_conf 89923867579987111348 No 4 >1fzc_C Fibrin; blood coagulation, plasma protein, crosslinking; HET: NAG MAN; 2.30A {Homo sapiens} SCOP: d.171.1.1 h.1.8.1 PDB: 1fzb_C* 1fza_C* 1fze_C* 1fzf_C* 1fzg_C* 3e1i_C* 2hlo_C* 1n8e_C 1n86_C* 2q9i_C* 2z4e_C* 2h43_C* 2hod_C* 2hpc_C* 3h32_C* 1re3_C* 1ltj_C* 1lt9_C* 1re4_C* 2ffd_C* ... Probab=6.68 E-value=76 Score=14.96 Aligned_cols=24 Identities=25% Similarity=0.512 Sum_probs=15.2 Q ss_pred HCCCCCCCCCC--HHHHHHHHCCCCC Q ss_conf 11311134200--0122223113336 Q gi|254780492|r 11 RKGIWWMPWHA--QAMKDVICCDKLW 34 (40) Q Consensus 11 ~Kg~wWMPw~~--eaMKDV~~CdK~r 34 (40) .+||+|.+|+- .++|-|..--+|+ T Consensus 277 ~~GI~W~~w~g~~ysLK~~~M~IRP~ 302 (319) T 1fzc_C 277 DNGIIWATWKTRWYSMKKTTMKIIPF 302 (319) T ss_dssp CCBSEETTTSCTTBCCSEEEEEEEET T ss_pred CCCEEECCCCCCCCCCEEEEEEECCC T ss_conf 89339754798443325799987538 No 5 >3ira_A Conserved protein; methanosarcina mazei,structural genomics, PSI, MCSG, protein structure initiative; 2.10A {Methanosarcina mazei GO1} Probab=5.10 E-value=1.8e+02 Score=13.21 Aligned_cols=25 Identities=24% Similarity=0.477 Sum_probs=18.7 Q ss_pred HHHCCCCCCCCCCHHHHHHHHCCCC Q ss_conf 2211311134200012222311333 Q gi|254780492|r 9 QARKGIWWMPWHAQAMKDVICCDKL 33 (40) Q Consensus 9 Qa~Kg~wWMPw~~eaMKDV~~CdK~ 33 (40) .|.--+-|.||..||++--..-+|| T Consensus 17 ha~npV~W~~w~~eal~~Ak~~~Kp 41 (173) T 3ira_A 17 HAYNPVDWYPWGEEAFEKARKENKP 41 (173) T ss_dssp TTTSSSCCBCSSHHHHHHHHHHTCC T ss_pred HCCCCCCCCCCCHHHHHHHHHHCCC T ss_conf 7789947528889999999986991 No 6 >2fib_A Fibrinogen; fibrinogen, blood coagulation, fibrin polymerization, complex (blood coagulation/peptide); 2.01A {Homo sapiens} SCOP: d.171.1.1 PDB: 1fic_A 1fid_A 1fib_A 3fib_A Probab=4.50 E-value=1.6e+02 Score=13.44 Aligned_cols=22 Identities=27% Similarity=0.539 Sum_probs=13.9 Q ss_pred HCCCCCCCCCC--HHHHHHHHCCC Q ss_conf 11311134200--01222231133 Q gi|254780492|r 11 RKGIWWMPWHA--QAMKDVICCDK 32 (40) Q Consensus 11 ~Kg~wWMPw~~--eaMKDV~~CdK 32 (40) .+||.|++|+- ..+|-|..--. T Consensus 222 ~~GI~W~~w~g~~yslK~~~M~IR 245 (269) T 2fib_A 222 DNGIIWATWKTRWYSMKKTTMKII 245 (269) T ss_dssp CCSSEETTTSCTTBCCSEEEEEEE T ss_pred CCCCEECCCCCCCEEEEEEEEEEE T ss_conf 882087526883220267999975 No 7 >1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C Probab=4.28 E-value=1.7e+02 Score=13.32 Aligned_cols=24 Identities=25% Similarity=0.374 Sum_probs=14.2 Q ss_pred HHCCCCCCCCC--CHHHHHHHHCCCC Q ss_conf 21131113420--0012222311333 Q gi|254780492|r 10 ARKGIWWMPWH--AQAMKDVICCDKL 33 (40) Q Consensus 10 a~Kg~wWMPw~--~eaMKDV~~CdK~ 33 (40) ...||+|++|+ ..++|-|..--.| T Consensus 363 ~~~gi~W~~~~~~~~slk~~~M~irp 388 (409) T 1m1j_C 363 YDNGIIWATWRDRWYSMKKTTMKIIP 388 (409) T ss_dssp CCCSSEETTTSCTTBCCSEEEEEEEE T ss_pred CCCCEEECCCCCCCCCCCEEEEEECC T ss_conf 89922878789976443248998732 No 8 >2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A Probab=4.21 E-value=1.6e+02 Score=13.53 Aligned_cols=32 Identities=28% Similarity=0.422 Sum_probs=20.5 Q ss_pred CCCHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCC Q ss_conf 5211221131113420001222231133366434 Q gi|254780492|r 5 NESNQARKGIWWMPWHAQAMKDVICCDKLWGAAN 38 (40) Q Consensus 5 ~~~~Qa~Kg~wWMPw~~eaMKDV~~CdK~rGa~n 38 (40) ++-+|+.++..|+|-..- +-=..|.++-+.-+ T Consensus 2 ~~~~~~~~~~~W~~d~~~--~~C~~C~~~F~~~~ 33 (82) T 2yw8_A 2 KEVNQALKGHAWLKDDEA--THCRQCEKEFSISR 33 (82) T ss_dssp -------------CCCCC--CBCTTTCCBCBTTB T ss_pred CHHHHHCCCCCCCCCCCC--CCCCCCCCCCCCCC T ss_conf 022221378889897647--86926498141755 No 9 >1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B* Probab=3.65 E-value=1.5e+02 Score=13.59 Aligned_cols=18 Identities=39% Similarity=0.938 Sum_probs=10.6 Q ss_pred HHCCCCCCCCCC--HHHHHH Q ss_conf 211311134200--012222 Q gi|254780492|r 10 ARKGIWWMPWHA--QAMKDV 27 (40) Q Consensus 10 a~Kg~wWMPw~~--eaMKDV 27 (40) ..+||+|+.|+- ..+|-| T Consensus 435 ~~~Gi~W~~~~g~~yslk~~ 454 (464) T 1m1j_B 435 TDDGIVWMNWKGSWYSMKKM 454 (464) T ss_dssp SCCBSEEHHHHCSSBCCSEE T ss_pred CCCCEEECCCCCCCCCCCEE T ss_conf 89942868789986111258 No 10 >1lwu_B Fibrinogen beta 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_B* Probab=3.16 E-value=1.4e+02 Score=13.73 Aligned_cols=19 Identities=26% Similarity=0.760 Sum_probs=11.3 Q ss_pred HCCCCCCCCC--CHHHHHHHH Q ss_conf 1131113420--001222231 Q gi|254780492|r 11 RKGIWWMPWH--AQAMKDVIC 29 (40) Q Consensus 11 ~Kg~wWMPw~--~eaMKDV~~ 29 (40) ..||+|.+|+ ...+|-|.. T Consensus 296 ~~GI~W~~w~g~~yslk~~~M 316 (323) T 1lwu_B 296 DDGVVWMNWKGSWYSMRQMAM 316 (323) T ss_dssp CCSSEEHHHHCTTBCCSEEEE T ss_pred CCCEEECCCCCCCCCCCEEEE T ss_conf 995397357998601234899 Done!