Query 025637
Match_columns 250
No_of_seqs 13 out of 15
Neff 1.8
Searched_HMMs 29240
Date Mon Mar 25 14:24:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025637.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025637hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3doa_A Fibrinogen binding prot 42.1 19 0.00065 30.7 3.4 84 111-204 48-135 (288)
2 3a4c_A DNA replication factor 25.9 26 0.00088 27.6 1.4 15 229-243 51-65 (106)
3 2ywq_A Protein Y, ribosomal su 22.2 1.4E+02 0.0048 21.2 4.7 64 177-243 34-100 (105)
4 2l1s_A Uncharacterized protein 20.7 60 0.0021 24.0 2.5 61 92-181 3-74 (83)
5 3tqm_A Ribosome-associated fac 19.5 2.4E+02 0.0082 19.8 5.4 62 177-243 33-94 (96)
6 3tq7_B Microtubule-associated 16.7 71 0.0024 23.8 2.1 22 223-244 9-34 (82)
7 3hvz_A Uncharacterized protein 15.2 72 0.0025 22.7 1.7 23 85-107 6-28 (78)
8 3sjl_D Methylamine dehydrogena 13.9 4.6E+02 0.016 23.1 6.9 48 166-214 311-363 (386)
9 1a92_A Delta antigen; leucine 13.5 1E+02 0.0036 21.7 2.1 18 225-242 7-27 (50)
10 4fyl_A Ribosome hibernation pr 13.1 3.7E+02 0.013 19.0 5.2 62 177-243 33-94 (95)
No 1
>3doa_A Fibrinogen binding protein; structural genomics, MCSG., protein structure initiative, midwest center for structural genomics; 2.81A {Staphylococcus aureus subsp}
Probab=42.07 E-value=19 Score=30.69 Aligned_cols=84 Identities=17% Similarity=0.271 Sum_probs=50.6
Q ss_pred hhhhcccCCcccccCCCCCCCCCcCchhhHHhhhhheehhcccccCCCCcceeecceEEEeecCc----ceeeeeeEEEe
Q 025637 111 IRCAVSDYGCYNVTEPPIDAPRDPMYKSEREIHKVFLVKHYRNRRLGDPEFVLDFEEIYVIDSKT----KSITRAKVLVT 186 (250)
Q Consensus 111 ~rC~~~~yg~ynvtePPid~pRdp~yk~E~ei~KVfL~KHYrNrR~~dp~FvLdfeeiyViDskt----kSItrAkV~v~ 186 (250)
+-|+...+.+.++|+.+.+.|..|- -.-.+|.||-++.|..+=.- +.+|.|..|+-.+ +.+..-.+.|+
T Consensus 48 ~ls~~p~~~ri~lt~~~~~~p~~p~------~F~m~LRk~L~g~ri~~i~Q-~~~DRIv~~~f~~~~e~g~~~~~~Li~E 120 (288)
T 3doa_A 48 LLSIHPNFSRLQLTTKKYDNPFNPP------MFARVFRKHLEGGIIESIKQ-IGNDRRIEIDIKSKDEIGDTIYRTVILE 120 (288)
T ss_dssp EEECCTTTCEEEEECC-------CC------HHHHHHHHHHTTCEEEEEEE-STTSSEEEEEEEEECTTSCEEEEEEEEE
T ss_pred EEEECCCceEEEEcCCCCCCCCCCc------HHHHHHHHHhCCCEEEEEEE-CCCceEEEEEEeeccccCCccceEEEEE
Confidence 3445556667788887766665443 23457999999999876654 4889998888655 44556677777
Q ss_pred ecCCccCCCceEEEeeCC
Q 025637 187 LPRNRDRKSDLLIVRDNG 204 (250)
Q Consensus 187 vpr~RDR~~dlL~irD~G 204 (250)
+= .|.+.++++..+|
T Consensus 121 l~---gr~SNiIL~d~~~ 135 (288)
T 3doa_A 121 IM---GKHSNLILVDENR 135 (288)
T ss_dssp CC---GGGCEEEEEETTC
T ss_pred Ec---CCCceEEEEcCCC
Confidence 74 2335555555444
No 2
>3a4c_A DNA replication factor CDT1; alpha-beta structure, cell cycle, DNA- binding, nucleus, phosphoprotein, proto-oncogene, UBL conjugation; HET: DNA; 1.89A {Mus musculus} PDB: 2rqq_A*
Probab=25.86 E-value=26 Score=27.62 Aligned_cols=15 Identities=33% Similarity=0.541 Sum_probs=12.2
Q ss_pred hhHHHHHHHHhhhcc
Q 025637 229 KTRADMERHLRKLRD 243 (250)
Q Consensus 229 ~sredme~hlrklRD 243 (250)
-|+++||+||+.|-.
T Consensus 51 ls~~EmE~hl~lL~e 65 (106)
T 3a4c_A 51 LSPGEMEKHLVLLAE 65 (106)
T ss_dssp CCHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHH
Confidence 478999999998743
No 3
>2ywq_A Protein Y, ribosomal subunit interface protein; sigma-54 modulation protein family, structural genomics; 2.64A {Thermus thermophilus} SCOP: d.204.1.1
Probab=22.24 E-value=1.4e+02 Score=21.25 Aligned_cols=64 Identities=14% Similarity=0.150 Sum_probs=29.9
Q ss_pred eeeeeeEEEeecCCc---cCCCceEEEeeCCeeeEEEeCCccCChhhhhhhhHHhhhHHHHHHHHhhhcc
Q 025637 177 SITRAKVLVTLPRNR---DRKSDLLIVRDNGNSFKIIHASRKEDATTVIEKEEWVKTRADMERHLRKLRD 243 (250)
Q Consensus 177 SItrAkV~v~vpr~R---DR~~dlL~irD~G~sFkIi~~~~r~dpttvI~~eeW~~sredme~hlrklRD 243 (250)
.|++|.|.+++.++. .+..=-+.|+-.|..+. -....+|.-..|..- -.+-...+.||..|+++
T Consensus 34 ~i~~~~V~l~~e~~~~~~~~~~~eitv~~~g~~l~--a~~~~~d~y~Aid~a-~dklerqL~k~k~K~~~ 100 (105)
T 2ywq_A 34 GELMAKVVLSLAGSPHVEKKARAEIQVDLPGGLVR--VEEEDADLYAAIDRA-VDRLETQVKRFRERRYV 100 (105)
T ss_dssp SCCEEEEEEEECC------CEEEEEEEEETTEEEE--EEEEESSHHHHHHHH-HHHHHHHHHHTC-----
T ss_pred CCeEEEEEEEEecCCCCCCceEEEEEEEcCCcEEE--EEEccCCHHHHHHHH-HHHHHHHHHHHHHHHhh
Confidence 478899999998652 12222355677786443 234455655555421 22333334444444443
No 4
>2l1s_A Uncharacterized protein YOHN; PFAM PF11776, DUF3315, JCSG, structural genomics, PSI-biolog protein structure initiative; NMR {Klebsiella pneumoniae subsp}
Probab=20.75 E-value=60 Score=23.99 Aligned_cols=61 Identities=16% Similarity=0.299 Sum_probs=40.6
Q ss_pred CCCceeecccccCC---------Cchhhh--hhhcccCCcccccCCCCCCCCCcCchhhHHhhhhheehhcccccCCCCc
Q 025637 92 PDTDIYAIPKVLAP---------MPQKYI--RCAVSDYGCYNVTEPPIDAPRDPMYKSEREIHKVFLVKHYRNRRLGDPE 160 (250)
Q Consensus 92 PdTDvYsiPrVl~p---------MPqky~--rC~~~~yg~ynvtePPid~pRdp~yk~E~ei~KVfL~KHYrNrR~~dp~ 160 (250)
...|-|.+|+..+| ||..|. +-...++-.|++..||.. |+=-|. +
T Consensus 3 ~~~~~y~~~~~~~~~~~w~~G~~lP~~yr~~~Y~V~Dw~~~~L~~PPrG---------------------y~Wvrv-~-- 58 (83)
T 2l1s_A 3 AGIDQYALKEFTADFTQFHIGDTVPAMYLTPEYNIKQWQQRNLPAPDAG---------------------SHWTYM-G-- 58 (83)
T ss_dssp CSSGGGBCSEEEETTEEEETTCBCCGGGTSGGGEECCCTTSSCCCCCTT---------------------EEEEEC-S--
T ss_pred ccccccccceeeccCcccccCCCCCHHHcCCceEcCCHhHCCCCccCCC---------------------CEEEEE-C--
Confidence 34567888888877 888876 345677888887766643 222232 2
Q ss_pred ceeecceEEEeecCcceeeee
Q 025637 161 FVLDFEEIYVIDSKTKSITRA 181 (250)
Q Consensus 161 FvLdfeeiyViDsktkSItrA 181 (250)
..+.+|+..|+.|..+
T Consensus 59 -----~dyvLVai~tG~I~~i 74 (83)
T 2l1s_A 59 -----GNYVLITDTEGKILKV 74 (83)
T ss_dssp -----SEEEEEETTTCBEEEE
T ss_pred -----CcEEEEECCCCeEEEE
Confidence 3455689999999876
No 5
>3tqm_A Ribosome-associated factor Y; protein synthesis, protein binding; 2.45A {Coxiella burnetii}
Probab=19.53 E-value=2.4e+02 Score=19.82 Aligned_cols=62 Identities=13% Similarity=0.155 Sum_probs=31.1
Q ss_pred eeeeeeEEEeecCCccCCCceEEEeeCCeeeEEEeCCccCChhhhhhhhHHhhhHHHHHHHHhhhcc
Q 025637 177 SITRAKVLVTLPRNRDRKSDLLIVRDNGNSFKIIHASRKEDATTVIEKEEWVKTRADMERHLRKLRD 243 (250)
Q Consensus 177 SItrAkV~v~vpr~RDR~~dlL~irD~G~sFkIi~~~~r~dpttvI~~eeW~~sredme~hlrklRD 243 (250)
.|++|.|.+++.+++-+- -+.|+=.|.. |.-.++.+|.-..|..- -.+-...+.||-.|+++
T Consensus 33 ~i~~~~V~l~~e~~~~~~--ei~i~~~g~~--l~a~~~~~d~y~Aid~a-~dklerqL~k~k~k~~~ 94 (96)
T 3tqm_A 33 EISNIHIIFHINKLKKIV--DANVKLPGST--INAQAESDDMYKTVDLL-MHKLETQLSKYKAKKGD 94 (96)
T ss_dssp GCCEEEEEEEEETTEEEE--EEEEEETTEE--EEEEECCSCHHHHHHHH-HHHHHHHHHHHHTC---
T ss_pred CCeEEEEEEEEeCCceEE--EEEEEeCCcE--EEEEEecCCHHHHHHHH-HHHHHHHHHHHHHHhhc
Confidence 467788888888764322 2344555663 33334455665555432 23334445555555543
No 6
>3tq7_B Microtubule-associated protein RP/EB family membe; CAP-Gly domain, protein-protein interaction, microtubule BIN cytoskeleton, protein binding; 2.30A {Homo sapiens} SCOP: a.245.1.1
Probab=16.74 E-value=71 Score=23.83 Aligned_cols=22 Identities=27% Similarity=0.342 Sum_probs=18.7
Q ss_pred hhhHHhhhHHHHHH----HHhhhccC
Q 025637 223 EKEEWVKTRADMER----HLRKLRDF 244 (250)
Q Consensus 223 ~~eeW~~sredme~----hlrklRDf 244 (250)
+-.+|+.+-+.||+ |+.||||-
T Consensus 9 ei~eLk~~ve~lEkERDFYF~KLRdI 34 (82)
T 3tq7_B 9 QLVDLKLTVDGLEKERDFYFSKLRDI 34 (82)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999998 89999974
No 7
>3hvz_A Uncharacterized protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium; 2.20A {Clostridium leptum}
Probab=15.19 E-value=72 Score=22.75 Aligned_cols=23 Identities=22% Similarity=0.446 Sum_probs=18.7
Q ss_pred eeeeecCCCCceeecccccCCCc
Q 025637 85 REMYVTPPDTDIYAIPKVLAPMP 107 (250)
Q Consensus 85 REMYVTpPdTDvYsiPrVl~pMP 107 (250)
.||||+-|+.+++..|+---++-
T Consensus 6 ~~i~v~tP~G~~~~lp~GaT~~D 28 (78)
T 3hvz_A 6 EEVFVFTPKGDVISLPIGSTVID 28 (78)
T ss_dssp CEEEEECTTSCEEEEETTCBHHH
T ss_pred ceEEEECCCCCEEEecCCCCHHH
Confidence 48999999999999998554444
No 8
>3sjl_D Methylamine dehydrogenase heavy chain; MAUG, C-heme, quinone cofactor, oxidoreductase-electron transport complex; HET: 0AF HEC MES; 1.63A {Paracoccus denitrificans} PDB: 2gc7_A* 2j55_H* 2j56_H* 2j57_G* 3l4m_D* 3l4o_D* 3orv_D* 3pxs_D* 3pxt_D* 3rlm_D* 2gc4_A* 3rn0_D* 3rn1_D* 3rmz_D* 3svw_D* 3sws_D* 3sxt_D* 3pxw_D* 3sle_D* 1mg2_A* ...
Probab=13.90 E-value=4.6e+02 Score=23.06 Aligned_cols=48 Identities=21% Similarity=0.188 Sum_probs=29.0
Q ss_pred ceEEEeecCcceeeeeeEEEeec-----CCccCCCceEEEeeCCeeeEEEeCCc
Q 025637 166 EEIYVIDSKTKSITRAKVLVTLP-----RNRDRKSDLLIVRDNGNSFKIIHASR 214 (250)
Q Consensus 166 eeiyViDsktkSItrAkV~v~vp-----r~RDR~~dlL~irD~G~sFkIi~~~~ 214 (250)
.+|+|||.+|+.+.+ .+.|--+ -..|-+.-|++.--++.+..+|+...
T Consensus 311 ~~V~viD~~t~kv~~-~i~vg~~~~~lavs~D~~~~ly~tn~~~~~VsViD~~t 363 (386)
T 3sjl_D 311 RFVVVLDAKTGERLA-KFEMGHEIDSINVSQDEKPLLYALSTGDKTLYIHDAES 363 (386)
T ss_dssp EEEEEEETTTCCEEE-EEEEEEEECEEEECSSSSCEEEEEETTTTEEEEEETTT
T ss_pred CEEEEEECCCCeEEE-EEECCCCcceEEECCCCCeEEEEEcCCCCeEEEEECCC
Confidence 579999999998754 4444332 24455333443333456777777653
No 9
>1a92_A Delta antigen; leucine zipper, coiled-coil, oligomerization; 1.80A {Hepatitis delta virus} SCOP: h.4.6.1 PDB: 1by0_A
Probab=13.47 E-value=1e+02 Score=21.70 Aligned_cols=18 Identities=50% Similarity=0.951 Sum_probs=12.7
Q ss_pred hHH---hhhHHHHHHHHhhhc
Q 025637 225 EEW---VKTRADMERHLRKLR 242 (250)
Q Consensus 225 eeW---~~sredme~hlrklR 242 (250)
++| .+-.+++|+-|||.+
T Consensus 7 eqWv~~Rkk~eeler~lrk~k 27 (50)
T 1a92_A 7 EQWVSGRKKLEELERDLRKLK 27 (50)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 689 555677788887754
No 10
>4fyl_A Ribosome hibernation protein YHBH; beta-alpha-beta-BETA-beta-alpha secondary structure fold SIM YFIA of E. coli; HET: FME; 1.60A {Vibrio cholerae}
Probab=13.14 E-value=3.7e+02 Score=18.96 Aligned_cols=62 Identities=16% Similarity=0.221 Sum_probs=29.3
Q ss_pred eeeeeeEEEeecCCccCCCceEEEeeCCeeeEEEeCCccCChhhhhhhhHHhhhHHHHHHHHhhhcc
Q 025637 177 SITRAKVLVTLPRNRDRKSDLLIVRDNGNSFKIIHASRKEDATTVIEKEEWVKTRADMERHLRKLRD 243 (250)
Q Consensus 177 SItrAkV~v~vpr~RDR~~dlL~irD~G~sFkIi~~~~r~dpttvI~~eeW~~sredme~hlrklRD 243 (250)
.|+.|.|.+++.+++-+-+ + .|.=.|..+.. .++.+|.-.-|..- ..+-...+.||=.|+++
T Consensus 33 ~i~~~~V~l~~e~~~~~ve-i-~i~~~g~~l~a--~~~~~d~y~AiD~a-~dklerQlrk~K~K~~~ 94 (95)
T 4fyl_A 33 HINHVQVILRVEKLRQIAE-A-TLHVNQAEIHA--HADDENMYAAIDSL-VDKLVRQLNKHKEKLSS 94 (95)
T ss_dssp CEEEEEEEEEEETTEEEEE-E-EEEETTEEEEE--EEEESSHHHHHHHH-HHHHHHHHHHHHHHC--
T ss_pred CCeEEEEEEEEecCcEEEE-E-EEEeCCcEEEE--EEecCCHHHHHHHH-HHHHHHHHHHHHHHhcC
Confidence 4567788888877665433 2 22335654432 33445555444321 22223334444444443
Done!