Query 028401
Match_columns 209
No_of_seqs 115 out of 245
Neff 4.5
Searched_HMMs 29240
Date Mon Mar 25 18:06:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028401.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028401hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2l8s_A Integrin alpha-1; trans 75.7 4.6 0.00016 27.6 4.6 37 11-48 5-41 (54)
2 2knc_A Integrin alpha-IIB; tra 75.6 6.4 0.00022 26.8 5.3 37 11-48 8-44 (54)
3 2k1a_A Integrin alpha-IIB; sin 71.7 5.8 0.0002 25.7 4.1 36 11-47 6-41 (42)
4 2uwj_E Type III export protein 41.9 14 0.00048 26.5 2.2 33 32-64 8-40 (70)
5 2jwa_A Receptor tyrosine-prote 39.5 26 0.0009 22.8 3.0 30 15-49 12-41 (44)
6 1rh4_A Right-handed coiled coi 32.1 33 0.0011 21.0 2.4 16 47-62 18-33 (35)
7 1uii_A Geminin; human, DNA rep 31.9 36 0.0012 25.1 3.1 16 41-56 31-46 (83)
8 2zxx_A Geminin; coiled-coil, c 26.8 26 0.00088 25.6 1.5 14 43-56 21-34 (79)
9 1zke_A Hypothetical protein HP 24.7 11 0.00039 27.6 -0.7 18 49-66 65-82 (83)
10 3sok_A Fimbrial protein; pilus 24.5 1.5E+02 0.0052 22.6 5.8 40 22-61 7-46 (151)
11 1wlq_A Geminin; coiled-coil; 2 23.3 33 0.0011 25.3 1.5 15 42-56 24-38 (83)
12 1vf5_F Protein PET M; photosyn 22.6 99 0.0034 19.2 3.4 23 17-39 7-29 (35)
13 2wvr_A Geminin; DNA replicatio 22.5 58 0.002 27.7 3.1 15 42-56 101-115 (209)
14 1q90_M Cytochrome B6F complex 21.9 1.4E+02 0.0047 19.0 4.0 24 17-40 8-31 (39)
15 2knc_B Integrin beta-3; transm 21.2 1.5E+02 0.0051 21.0 4.7 16 189-204 41-56 (79)
16 4b19_A PEPA1; toxin, toxin apo 20.7 45 0.0015 20.2 1.5 14 36-49 17-30 (30)
17 3pvv_A Chromosomal replication 20.5 86 0.0029 23.1 3.4 29 33-62 50-78 (101)
18 1vry_A Glycine receptor alpha- 20.2 78 0.0027 22.6 3.0 21 20-40 40-60 (76)
19 4h63_Q Mediator of RNA polymer 20.1 87 0.003 29.2 4.0 26 48-73 29-55 (469)
No 1
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=75.73 E-value=4.6 Score=27.62 Aligned_cols=37 Identities=16% Similarity=0.448 Sum_probs=19.4
Q ss_pred ccCCchHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhcc
Q 028401 11 EETPTWAVAVVCFVLVTISIIIEHIIHLIGKWLTKKHK 48 (209)
Q Consensus 11 e~TPTWaVA~Vc~v~V~iSl~~Er~lH~lgk~Lkk~~k 48 (209)
+..|.|.+.+-...-+++-.++=-++-++| +|||+++
T Consensus 5 ~~vp~WiIi~svl~GLLLL~Lii~~LwK~G-FFKR~~~ 41 (54)
T 2l8s_A 5 GRVPLWVILLSAFAGLLLLMLLILALWKIG-FFKRPLK 41 (54)
T ss_dssp CCCCTHHHHHHHHHHHHHHHHHHHHHHHHH-HTTSCCS
T ss_pred ccCchHHHHHHHHHHHHHHHHHHHHHHHcC-cccCCCc
Confidence 358999643322222222223335666776 7777664
No 2
>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=75.55 E-value=6.4 Score=26.81 Aligned_cols=37 Identities=16% Similarity=0.319 Sum_probs=21.4
Q ss_pred ccCCchHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhcc
Q 028401 11 EETPTWAVAVVCFVLVTISIIIEHIIHLIGKWLTKKHK 48 (209)
Q Consensus 11 e~TPTWaVA~Vc~v~V~iSl~~Er~lH~lgk~Lkk~~k 48 (209)
...|.|.+.+-...-+++-.++=.++.++| +|||+++
T Consensus 8 ~~vp~wiIi~svl~GLllL~li~~~LwK~G-FFkR~~~ 44 (54)
T 2knc_A 8 RAIPIWWVLVGVLGGLLLLTILVLAMWKVG-FFKRNRP 44 (54)
T ss_dssp TTCCHHHHHHHHHHHHHHHHHHHHHHHHHH-HTTTTCC
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHHcC-cccCCCC
Confidence 358999654333333333334445777777 7777764
No 3
>2k1a_A Integrin alpha-IIB; single-PASS transmembrane segment, alternative splicing, calcium, cell adhesion, cleavage on PAIR of basic residues; NMR {Homo sapiens} PDB: 2k9j_A
Probab=71.65 E-value=5.8 Score=25.67 Aligned_cols=36 Identities=17% Similarity=0.334 Sum_probs=19.5
Q ss_pred ccCCchHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhc
Q 028401 11 EETPTWAVAVVCFVLVTISIIIEHIIHLIGKWLTKKH 47 (209)
Q Consensus 11 e~TPTWaVA~Vc~v~V~iSl~~Er~lH~lgk~Lkk~~ 47 (209)
+..|.|.+.+-...-+++-.++=.++.++| +|||++
T Consensus 6 ~~vp~wiIi~s~l~GLllL~li~~~LwK~G-FFkR~~ 41 (42)
T 2k1a_A 6 RAIPIWWVLVGVLGGLLLLTILVLAMWKVG-FFKRNR 41 (42)
T ss_dssp CCCCHHHHHHHHHHHHHHHHHHHHHHHHTT-TTCCCC
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHHcC-cccCCC
Confidence 458999644333222233333445677776 677654
No 4
>2uwj_E Type III export protein PSCE; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}
Probab=41.94 E-value=14 Score=26.48 Aligned_cols=33 Identities=18% Similarity=0.188 Sum_probs=25.4
Q ss_pred HHHHHHHHHhHhhhhcchHHHHHHHHHHHHHHH
Q 028401 32 IEHIIHLIGKWLTKKHKRALYEALEKIKSELML 64 (209)
Q Consensus 32 ~Er~lH~lgk~Lkk~~kkaL~eALeKiK~ELML 64 (209)
+|..|+-.+.-+.+.=+..|+.||-++|.+|++
T Consensus 8 LE~~L~~~~~~~~~~i~~~L~qAl~~vKrqL~~ 40 (70)
T 2uwj_E 8 LETRLSVADGTHAAALRQRLQAALAECRRELAR 40 (70)
T ss_dssp HHHHHTSSSTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 466666655556666677899999999999985
No 5
>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A
Probab=39.49 E-value=26 Score=22.83 Aligned_cols=30 Identities=13% Similarity=0.374 Sum_probs=15.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhcch
Q 028401 15 TWAVAVVCFVLVTISIIIEHIIHLIGKWLTKKHKR 49 (209)
Q Consensus 15 TWaVA~Vc~v~V~iSl~~Er~lH~lgk~Lkk~~kk 49 (209)
|++.|.|..+++++-+.+ -++=|++||+++
T Consensus 12 ~~Ia~~vVGvll~vi~~l-----~~~~~~RRR~~~ 41 (44)
T 2jwa_A 12 TSIISAVVGILLVVVLGV-----VFGILIKRRQQK 41 (44)
T ss_dssp HHHHHHHHHHHHHHHHHH-----HHHHHHHHHCSC
T ss_pred cchHHHHHHHHHHHHHHH-----HHHhheehhhhh
Confidence 456666655443332222 234577777653
No 6
>1rh4_A Right-handed coiled coil tetramer; de novo design; 1.90A {Synthetic construct} SCOP: k.17.1.1
Probab=32.13 E-value=33 Score=21.04 Aligned_cols=16 Identities=44% Similarity=0.580 Sum_probs=12.8
Q ss_pred cchHHHHHHHHHHHHH
Q 028401 47 HKRALYEALEKIKSEL 62 (209)
Q Consensus 47 ~kkaL~eALeKiK~EL 62 (209)
-|-..+.||.|||.|+
T Consensus 18 ikaeilaalkkikqei 33 (35)
T 1rh4_A 18 IKAEILAALKKIKQEI 33 (35)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3567888999999885
No 7
>1uii_A Geminin; human, DNA replication, cell cycle; 2.00A {Homo sapiens} SCOP: h.1.28.1
Probab=31.90 E-value=36 Score=25.05 Aligned_cols=16 Identities=50% Similarity=0.773 Sum_probs=11.7
Q ss_pred hHhhhhcchHHHHHHH
Q 028401 41 KWLTKKHKRALYEALE 56 (209)
Q Consensus 41 k~Lkk~~kkaL~eALe 56 (209)
+-+-.+||+||.+||+
T Consensus 31 k~lAE~RR~AL~eaL~ 46 (83)
T 1uii_A 31 KEVAEKRRKALYEALK 46 (83)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3456677888888886
No 8
>2zxx_A Geminin; coiled-coil, cell cycle, coiled coil, DNA replication inhibitor, phosphoprotein, DNA-binding, nucleus, proto-oncogene; HET: DNA; 2.80A {Mus musculus}
Probab=26.77 E-value=26 Score=25.55 Aligned_cols=14 Identities=43% Similarity=0.869 Sum_probs=9.7
Q ss_pred hhhhcchHHHHHHH
Q 028401 43 LTKKHKRALYEALE 56 (209)
Q Consensus 43 Lkk~~kkaL~eALe 56 (209)
+-.+||+||.+||+
T Consensus 21 lAE~RR~AL~eaL~ 34 (79)
T 2zxx_A 21 VAEQRRKALYEALK 34 (79)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 45567777777776
No 9
>1zke_A Hypothetical protein HP1531; layer of helix-turn-helix, structural G PSI, protein structure initiative, midwest center for struc genomics; 1.60A {Helicobacter pylori} SCOP: a.30.6.1
Probab=24.67 E-value=11 Score=27.60 Aligned_cols=18 Identities=44% Similarity=0.761 Sum_probs=14.9
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 028401 49 RALYEALEKIKSELMLLG 66 (209)
Q Consensus 49 kaL~eALeKiK~ELMLLG 66 (209)
|....||.|+|.|+.+.|
T Consensus 65 Ke~IdaLNK~Kke~lv~~ 82 (83)
T 1zke_A 65 KELINALNKIKKGLLVFG 82 (83)
T ss_dssp HHHHHHHHHHHGGGCSTT
T ss_pred HHHHHHHHHHHHHHhhcC
Confidence 578899999999986654
No 10
>3sok_A Fimbrial protein; pilus subunit, extracellular, cell adhesion; 2.30A {Dichelobacter nodosus}
Probab=24.46 E-value=1.5e+02 Score=22.56 Aligned_cols=40 Identities=13% Similarity=0.225 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhHhhhhcchHHHHHHHHHHHH
Q 028401 22 CFVLVTISIIIEHIIHLIGKWLTKKHKRALYEALEKIKSE 61 (209)
Q Consensus 22 c~v~V~iSl~~Er~lH~lgk~Lkk~~kkaL~eALeKiK~E 61 (209)
..|+++|+|+.==.+-.+..+.+|.+++.....+..++..
T Consensus 7 lvviaIigiLaaia~p~~~~~~~~~~~~~~~~~~~~~~~a 46 (151)
T 3sok_A 7 MIVVAIIGILAAFAIPAYNDYIARSQAAEGLTLADGLKVR 46 (151)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677777777777888888887766555555555543
No 11
>1wlq_A Geminin; coiled-coil; 2.80A {Mus musculus} PDB: 2zxx_A*
Probab=23.33 E-value=33 Score=25.28 Aligned_cols=15 Identities=40% Similarity=0.716 Sum_probs=11.3
Q ss_pred HhhhhcchHHHHHHH
Q 028401 42 WLTKKHKRALYEALE 56 (209)
Q Consensus 42 ~Lkk~~kkaL~eALe 56 (209)
-+-.+||+||++||+
T Consensus 24 ~lAE~Rr~AL~eaL~ 38 (83)
T 1wlq_A 24 EVAEQRRKALYEALK 38 (83)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 355677888888886
No 12
>1vf5_F Protein PET M; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: f.23.25.1 PDB: 2d2c_F* 2e74_F* 2e75_F* 2e76_F* 2zt9_F*
Probab=22.57 E-value=99 Score=19.22 Aligned_cols=23 Identities=17% Similarity=0.225 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 028401 17 AVAVVCFVLVTISIIIEHIIHLI 39 (209)
Q Consensus 17 aVA~Vc~v~V~iSl~~Er~lH~l 39 (209)
.+|++|++++++.+.+--.+=++
T Consensus 7 ~~A~i~~~LvLvGla~Gf~LLki 29 (35)
T 1vf5_F 7 YAALLSFGLIFVGWGLGVLLLKI 29 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHhhee
Confidence 47999999999999887666554
No 13
>2wvr_A Geminin; DNA replication license, DNA replication inhibitor, phosphoprotein, UBL conjugation, DNA-binding, polymorphism; HET: DNA; 3.30A {Homo sapiens}
Probab=22.45 E-value=58 Score=27.69 Aligned_cols=15 Identities=47% Similarity=0.753 Sum_probs=11.2
Q ss_pred HhhhhcchHHHHHHH
Q 028401 42 WLTKKHKRALYEALE 56 (209)
Q Consensus 42 ~Lkk~~kkaL~eALe 56 (209)
-+..+||+||++||+
T Consensus 101 ~lAE~RR~AL~eaLe 115 (209)
T 2wvr_A 101 EVAEKRRKALYEALK 115 (209)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 356677888888886
No 14
>1q90_M Cytochrome B6F complex subunit PETM; membrane protein complex, photosynthesis, electron transfer, oxydoreductase, chlorophyll; HET: HEM CL1 BCR TDS SQD LFA LMG; 3.10A {Chlamydomonas reinhardtii} SCOP: f.23.25.1
Probab=21.85 E-value=1.4e+02 Score=18.99 Aligned_cols=24 Identities=8% Similarity=0.207 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 028401 17 AVAVVCFVLVTISIIIEHIIHLIG 40 (209)
Q Consensus 17 aVA~Vc~v~V~iSl~~Er~lH~lg 40 (209)
.+|++|++++++.+.+--.|=++.
T Consensus 8 ~~A~i~~~L~LvGla~Gf~LLkiq 31 (39)
T 1q90_M 8 GTALTMVGMTLVGLAIGFVLLRVE 31 (39)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Confidence 479999999999999887776664
No 15
>2knc_B Integrin beta-3; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=21.20 E-value=1.5e+02 Score=21.01 Aligned_cols=16 Identities=25% Similarity=0.499 Sum_probs=12.6
Q ss_pred hhchHHHhhhhhcccc
Q 028401 189 MKKWKKWEKETRTIDY 204 (209)
Q Consensus 189 ir~Wk~WE~e~~~~~y 204 (209)
-|.++++|+|-++..+
T Consensus 41 rrE~~kFEkE~~~~~w 56 (79)
T 2knc_B 41 RKEFAKFEEERARAKW 56 (79)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccc
Confidence 6899999999776543
No 16
>4b19_A PEPA1; toxin, toxin apoptotic peptide, apoptosis; NMR {Staphylococcus aureus}
Probab=20.69 E-value=45 Score=20.19 Aligned_cols=14 Identities=21% Similarity=0.800 Sum_probs=10.6
Q ss_pred HHHHHhHhhhhcch
Q 028401 36 IHLIGKWLTKKHKR 49 (209)
Q Consensus 36 lH~lgk~Lkk~~kk 49 (209)
+-...+||++|++|
T Consensus 17 valF~hWL~~r~~k 30 (30)
T 4b19_A 17 IAFFSYWLSRRNTK 30 (30)
T ss_dssp HHHHHHHHHHHSCC
T ss_pred HHHHHHHHHhccCC
Confidence 44578899998875
No 17
>3pvv_A Chromosomal replication initiator protein DNAA; helix-turn-helix motif, interacting with DNAA-BOX, DNAA-box; HET: DNA; 2.00A {Mycobacterium tuberculosis} PDB: 3pvp_A*
Probab=20.51 E-value=86 Score=23.06 Aligned_cols=29 Identities=24% Similarity=0.299 Sum_probs=24.6
Q ss_pred HHHHHHHHhHhhhhcchHHHHHHHHHHHHH
Q 028401 33 EHIIHLIGKWLTKKHKRALYEALEKIKSEL 62 (209)
Q Consensus 33 Er~lH~lgk~Lkk~~kkaL~eALeKiK~EL 62 (209)
...+-.+|+.|. |...+...|.+||++++
T Consensus 50 ~~Sl~~IG~~fg-RDHsTV~ha~~ki~~~~ 78 (101)
T 3pvv_A 50 DLSLPKIGQAFG-RDHTTVMYAQRKILSEM 78 (101)
T ss_dssp CCCHHHHHHHTT-CCHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHC-CCHHHHHHHHHHHHHHH
Confidence 346778999999 78899999999999865
No 18
>1vry_A Glycine receptor alpha-1 chain; second transmembrane domain, third transmembrane domain, membrane protein; NMR {Homo sapiens} SCOP: j.35.1.1
Probab=20.24 E-value=78 Score=22.59 Aligned_cols=21 Identities=14% Similarity=0.472 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 028401 20 VVCFVLVTISIIIEHIIHLIG 40 (209)
Q Consensus 20 ~Vc~v~V~iSl~~Er~lH~lg 40 (209)
.+|++||..+++==-..|++.
T Consensus 40 ~~C~~FVF~aLlEya~V~y~~ 60 (76)
T 1vry_A 40 AVCLLFVFSALLEYAAVNFVS 60 (76)
T ss_dssp HHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 579999988876334456654
No 19
>4h63_Q Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; 3.40A {Schizosaccharomyces pombe}
Probab=20.05 E-value=87 Score=29.24 Aligned_cols=26 Identities=38% Similarity=0.501 Sum_probs=23.1
Q ss_pred chHHHHHHHHHHHHHHH-HHHHHHHHH
Q 028401 48 KRALYEALEKIKSELML-LGFISLLLT 73 (209)
Q Consensus 48 kkaL~eALeKiK~ELML-LGFISLLLt 73 (209)
|+.+++-+.-...|+|+ |=|+||||.
T Consensus 29 R~Eml~~i~~A~nE~slaLDfvSLLLS 55 (469)
T 4h63_Q 29 KKELIEQIMIAQTECSLALDMTSLLLS 55 (469)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56888899999999998 999999996
Done!