Query 008391
Match_columns 567
No_of_seqs 171 out of 257
Neff 4.0
Searched_HMMs 29240
Date Tue Mar 26 01:06:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008391.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/008391hhsearch_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 52.4 20 0.00067 28.3 4.7 44 12-57 5-48 (54)
2 2knc_A Integrin alpha-IIB; tra 48.9 22 0.00076 28.0 4.5 37 12-49 8-44 (54)
3 2k1a_A Integrin alpha-IIB; sin 45.0 25 0.00086 26.3 4.0 36 12-48 6-41 (42)
4 2knc_B Integrin beta-3; transm 25.2 1.2E+02 0.0042 25.1 5.5 23 181-203 40-62 (79)
5 2jwa_A Receptor tyrosine-prote 22.5 63 0.0021 24.5 2.9 30 16-50 12-41 (44)
6 2uwj_E Type III export protein 20.0 49 0.0017 27.4 2.0 33 33-65 8-40 (70)
7 1rh4_A Right-handed coiled coi 16.4 82 0.0028 22.4 2.2 20 44-63 14-33 (35)
8 1uii_A Geminin; human, DNA rep 14.0 1.1E+02 0.0038 26.0 2.8 15 43-57 32-46 (83)
9 1wlq_A Geminin; coiled-coil; 2 12.5 1.3E+02 0.0045 25.6 2.8 14 44-57 25-38 (83)
10 4h62_K Mediator of RNA polymer 10.5 1.4E+02 0.0047 21.8 2.0 22 47-68 7-28 (40)
No 1
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=52.41 E-value=20 Score=28.33 Aligned_cols=44 Identities=18% Similarity=0.360 Sum_probs=22.8
Q ss_pred ccCCchhhHHHHHHHHHHHHHHHHHHHHHhhHhhhccchHHHHHHH
Q 008391 12 EETPTWAVAAVFFVLIAVSVVIEHLIHIIGKWLNNRHKKALFEAVE 57 (567)
Q Consensus 12 e~TPTWaVA~VC~V~V~ISl~iEr~LH~LgkwLkkk~kkaL~eALe 57 (567)
+..|.|.+.+-...-+++-.++=-+|-++| +|||+++ +..+.||
T Consensus 5 ~~vp~WiIi~svl~GLLLL~Lii~~LwK~G-FFKR~~~-~~~~~~~ 48 (54)
T 2l8s_A 5 GRVPLWVILLSAFAGLLLLMLLILALWKIG-FFKRPLK-KKMEKLE 48 (54)
T ss_dssp CCCCTHHHHHHHHHHHHHHHHHHHHHHHHH-HTTSCCS-CCCCC--
T ss_pred ccCchHHHHHHHHHHHHHHHHHHHHHHHcC-cccCCCc-chhhHHh
Confidence 357999643322222233333445677777 7877765 3334443
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=48.95 E-value=22 Score=27.97 Aligned_cols=37 Identities=11% Similarity=0.266 Sum_probs=22.9
Q ss_pred ccCCchhhHHHHHHHHHHHHHHHHHHHHHhhHhhhccc
Q 008391 12 EETPTWAVAAVFFVLIAVSVVIEHLIHIIGKWLNNRHK 49 (567)
Q Consensus 12 e~TPTWaVA~VC~V~V~ISl~iEr~LH~LgkwLkkk~k 49 (567)
+..|.|.+.+-...-+++-.++=-+|.++| +|||+++
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 367999754443333334444456788888 7887765
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=44.98 E-value=25 Score=26.30 Aligned_cols=36 Identities=11% Similarity=0.278 Sum_probs=21.1
Q ss_pred ccCCchhhHHHHHHHHHHHHHHHHHHHHHhhHhhhcc
Q 008391 12 EETPTWAVAAVFFVLIAVSVVIEHLIHIIGKWLNNRH 48 (567)
Q Consensus 12 e~TPTWaVA~VC~V~V~ISl~iEr~LH~LgkwLkkk~ 48 (567)
+..|.|.+.+-...-+++-.++=-++.++| +|||++
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 468999654433333333334456777777 777665
No 4
>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=25.23 E-value=1.2e+02 Score=25.10 Aligned_cols=23 Identities=22% Similarity=0.462 Sum_probs=17.1
Q ss_pred hhhhHHHHHHhhhcccccccCCC
Q 008391 181 KMKKWKAWENETKTIEYQYYNDP 203 (567)
Q Consensus 181 Kir~Wk~WE~et~t~~~q~~~dp 203 (567)
.-|.++++|+|.+....+..++|
T Consensus 40 DrrE~~kFEkE~~~~~w~~~~NP 62 (79)
T 2knc_B 40 DRKEFAKFEEERARAKWDTANNP 62 (79)
T ss_dssp HHHHHHHHHHHHHHHHHTTTTCC
T ss_pred HHHHHHHHHHHHHhcccccCCCC
Confidence 36899999999887665555555
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=22.50 E-value=63 Score=24.48 Aligned_cols=30 Identities=27% Similarity=0.442 Sum_probs=15.3
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhhHhhhccch
Q 008391 16 TWAVAAVFFVLIAVSVVIEHLIHIIGKWLNNRHKK 50 (567)
Q Consensus 16 TWaVA~VC~V~V~ISl~iEr~LH~LgkwLkkk~kk 50 (567)
|++.|.|..+++++-+++ -++=|++||+++
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 456666655443333322 234478887753
No 6
>2uwj_E Type III export protein PSCE; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}
Probab=19.97 E-value=49 Score=27.37 Aligned_cols=33 Identities=15% Similarity=0.169 Sum_probs=24.0
Q ss_pred HHHHHHHHhhHhhhccchHHHHHHHHHHHHHHH
Q 008391 33 IEHLIHIIGKWLNNRHKKALFEAVEKVKAELML 65 (567)
Q Consensus 33 iEr~LH~LgkwLkkk~kkaL~eALeKiKeELML 65 (567)
+|..|+-.+.-..++=+--|..||-++|++|++
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 466666555555555566699999999999985
No 7
>1rh4_A Right-handed coiled coil tetramer; de novo design; 1.90A {Synthetic construct} SCOP: k.17.1.1
Probab=16.39 E-value=82 Score=22.36 Aligned_cols=20 Identities=30% Similarity=0.499 Sum_probs=14.3
Q ss_pred hhhccchHHHHHHHHHHHHH
Q 008391 44 LNNRHKKALFEAVEKVKAEL 63 (567)
Q Consensus 44 Lkkk~kkaL~eALeKiKeEL 63 (567)
|-.|-|-..+.||.|||.|+
T Consensus 14 llakikaeilaalkkikqei 33 (35)
T 1rh4_A 14 LLAKIKAEILAALKKIKQEI 33 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 33344567888999999885
No 8
>1uii_A Geminin; human, DNA replication, cell cycle; 2.00A {Homo sapiens} SCOP: h.1.28.1
Probab=14.03 E-value=1.1e+02 Score=26.03 Aligned_cols=15 Identities=33% Similarity=0.618 Sum_probs=10.5
Q ss_pred HhhhccchHHHHHHH
Q 008391 43 WLNNRHKKALFEAVE 57 (567)
Q Consensus 43 wLkkk~kkaL~eALe 57 (567)
-+..+||+||.+||+
T Consensus 32 ~lAE~RR~AL~eaL~ 46 (83)
T 1uii_A 32 EVAEKRRKALYEALK 46 (83)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 355667778888875
No 9
>1wlq_A Geminin; coiled-coil; 2.80A {Mus musculus} PDB: 2zxx_A*
Probab=12.49 E-value=1.3e+02 Score=25.60 Aligned_cols=14 Identities=36% Similarity=0.736 Sum_probs=10.0
Q ss_pred hhhccchHHHHHHH
Q 008391 44 LNNRHKKALFEAVE 57 (567)
Q Consensus 44 Lkkk~kkaL~eALe 57 (567)
+..+||+||++||+
T Consensus 25 lAE~Rr~AL~eaL~ 38 (83)
T 1wlq_A 25 VAEQRRKALYEALK 38 (83)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 45667778888875
No 10
>4h62_K Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=10.54 E-value=1.4e+02 Score=21.77 Aligned_cols=22 Identities=41% Similarity=0.404 Sum_probs=18.1
Q ss_pred ccchHHHHHHHHHHHHHHHHHH
Q 008391 47 RHKKALFEAVEKVKAELMLLGF 68 (567)
Q Consensus 47 k~kkaL~eALeKiKeELMLLGF 68 (567)
-+||||-.--||+.|.|=||.-
T Consensus 7 vnkkalgqdtekmeeqldllsa 28 (40)
T 4h62_K 7 VNKKALGQDTEKMEEQLDLLSA 28 (40)
T ss_pred ccHHhhcccHHHHHHHHHHHHH
Confidence 3678999999999999887643
Done!