Query 025359
Match_columns 254
No_of_seqs 136 out of 249
Neff 4.6
Searched_HMMs 29240
Date Mon Mar 25 08:45:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025359.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025359hhsearch_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 70.4 6.7 0.00023 27.5 4.5 44 11-56 5-48 (54)
2 2knc_A Integrin alpha-IIB; tra 66.0 13 0.00044 26.0 5.3 37 11-48 8-44 (54)
3 2k1a_A Integrin alpha-IIB; sin 62.0 9.4 0.00032 25.4 3.7 36 11-47 6-41 (42)
4 2uwj_E Type III export protein 33.9 21 0.00071 26.3 2.0 33 32-64 8-40 (70)
5 2jwa_A Receptor tyrosine-prote 33.9 34 0.0012 22.9 3.0 30 15-49 12-41 (44)
6 1rh4_A Right-handed coiled coi 29.7 36 0.0012 21.4 2.4 16 47-62 18-33 (35)
7 2knc_B Integrin beta-3; transm 27.0 1.1E+02 0.0038 22.4 5.1 22 189-210 41-62 (79)
8 1uii_A Geminin; human, DNA rep 26.3 48 0.0017 25.0 3.0 14 43-56 33-46 (83)
9 1wlq_A Geminin; coiled-coil; 2 23.9 57 0.002 24.6 3.0 14 43-56 25-38 (83)
10 1zke_A Hypothetical protein HP 23.8 12 0.00041 28.2 -0.8 18 49-66 65-82 (83)
11 3sok_A Fimbrial protein; pilus 23.6 1.5E+02 0.0051 23.4 5.7 42 21-62 6-47 (151)
12 1vf5_F Protein PET M; photosyn 21.2 1E+02 0.0035 19.7 3.4 23 17-39 7-29 (35)
13 4h62_K Mediator of RNA polymer 20.0 59 0.002 20.9 2.0 22 46-67 7-28 (40)
No 1
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=70.37 E-value=6.7 Score=27.54 Aligned_cols=44 Identities=20% Similarity=0.438 Sum_probs=21.8
Q ss_pred ccCCCchhHHHHHHHHHHHHHHHHHHHHHHhHhhhhcchHHHHHHH
Q 025359 11 EETPTWAVAVVCFVLVTISIIIEHIIHLIGKWLTKKHKRALYEALE 56 (254)
Q Consensus 11 e~TPTWaVA~Vc~v~V~iSl~~Er~lH~lgk~Lkkk~kkaL~eALe 56 (254)
+..|.|.+.+-...-+++-.++=-++-++| +|||+++ +..+.||
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 358999643322222222233345666777 7776654 4444444
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=65.96 E-value=13 Score=25.98 Aligned_cols=37 Identities=16% Similarity=0.319 Sum_probs=21.6
Q ss_pred ccCCCchhHHHHHHHHHHHHHHHHHHHHHHhHhhhhcc
Q 025359 11 EETPTWAVAVVCFVLVTISIIIEHIIHLIGKWLTKKHK 48 (254)
Q Consensus 11 e~TPTWaVA~Vc~v~V~iSl~~Er~lH~lgk~Lkkk~k 48 (254)
...|.|.+.+-...-+++-.++=-++.++| +|||+++
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 358999754433333333334446777777 7777664
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=62.00 E-value=9.4 Score=25.36 Aligned_cols=36 Identities=17% Similarity=0.334 Sum_probs=19.3
Q ss_pred ccCCCchhHHHHHHHHHHHHHHHHHHHHHHhHhhhhc
Q 025359 11 EETPTWAVAVVCFVLVTISIIIEHIIHLIGKWLTKKH 47 (254)
Q Consensus 11 e~TPTWaVA~Vc~v~V~iSl~~Er~lH~lgk~Lkkk~ 47 (254)
+..|.|.+.+-...-+++-.++=-++.++| +|||++
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 358999644333322333333445667776 666654
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=33.93 E-value=21 Score=26.30 Aligned_cols=33 Identities=18% Similarity=0.188 Sum_probs=24.1
Q ss_pred HHHHHHHHHhHhhhhcchHHHHHHHHHHHHHHH
Q 025359 32 IEHIIHLIGKWLTKKHKRALYEALEKIKSELML 64 (254)
Q Consensus 32 ~Er~lH~lgk~Lkkk~kkaL~eALeKiK~ELML 64 (254)
+|..|+-.+.-..++=+-.|+.||-++|.+|++
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 455555555555555566799999999999985
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=33.90 E-value=34 Score=22.89 Aligned_cols=30 Identities=13% Similarity=0.374 Sum_probs=14.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHhHhhhhcch
Q 025359 15 TWAVAVVCFVLVTISIIIEHIIHLIGKWLTKKHKR 49 (254)
Q Consensus 15 TWaVA~Vc~v~V~iSl~~Er~lH~lgk~Lkkk~kk 49 (254)
|++.|.|..+++++-+.+ -++=|++||+++
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 234577777654
No 6
>1rh4_A Right-handed coiled coil tetramer; de novo design; 1.90A {Synthetic construct} SCOP: k.17.1.1
Probab=29.68 E-value=36 Score=21.37 Aligned_cols=16 Identities=44% Similarity=0.580 Sum_probs=12.6
Q ss_pred cchHHHHHHHHHHHHH
Q 025359 47 HKRALYEALEKIKSEL 62 (254)
Q Consensus 47 ~kkaL~eALeKiK~EL 62 (254)
-|-..+.||.|||.|+
T Consensus 18 ikaeilaalkkikqei 33 (35)
T 1rh4_A 18 IKAEILAALKKIKQEI 33 (35)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3457888999999885
No 7
>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=27.02 E-value=1.1e+02 Score=22.36 Aligned_cols=22 Identities=23% Similarity=0.527 Sum_probs=16.2
Q ss_pred hhhhHHHHhhhhccccccCCCC
Q 025359 189 MKKWKKWEKETRTIDYQFSHDP 210 (254)
Q Consensus 189 ir~Wk~WE~e~~~~~~~~~~dp 210 (254)
-|.++++|+|-+....+..++|
T Consensus 41 rrE~~kFEkE~~~~~w~~~~NP 62 (79)
T 2knc_B 41 RKEFAKFEEERARAKWDTANNP 62 (79)
T ss_dssp HHHHHHHHHHHHHHHHTTTTCC
T ss_pred HHHHHHHHHHHHhcccccCCCC
Confidence 6899999999887655544445
No 8
>1uii_A Geminin; human, DNA replication, cell cycle; 2.00A {Homo sapiens} SCOP: h.1.28.1
Probab=26.30 E-value=48 Score=25.03 Aligned_cols=14 Identities=50% Similarity=0.909 Sum_probs=10.5
Q ss_pred hhhhcchHHHHHHH
Q 025359 43 LTKKHKRALYEALE 56 (254)
Q Consensus 43 Lkkk~kkaL~eALe 56 (254)
+-.+||+||.+||+
T Consensus 33 lAE~RR~AL~eaL~ 46 (83)
T 1uii_A 33 VAEKRRKALYEALK 46 (83)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 45677888888886
No 9
>1wlq_A Geminin; coiled-coil; 2.80A {Mus musculus} PDB: 2zxx_A*
Probab=23.94 E-value=57 Score=24.64 Aligned_cols=14 Identities=43% Similarity=0.869 Sum_probs=10.6
Q ss_pred hhhhcchHHHHHHH
Q 025359 43 LTKKHKRALYEALE 56 (254)
Q Consensus 43 Lkkk~kkaL~eALe 56 (254)
+-.+||+||++||+
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 45677888888886
No 10
>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=23.78 E-value=12 Score=28.18 Aligned_cols=18 Identities=44% Similarity=0.761 Sum_probs=15.0
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 025359 49 RALYEALEKIKSELMLLG 66 (254)
Q Consensus 49 kaL~eALeKiK~ELMLLG 66 (254)
|...+||.|+|.|+...|
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 678999999999986554
No 11
>3sok_A Fimbrial protein; pilus subunit, extracellular, cell adhesion; 2.30A {Dichelobacter nodosus}
Probab=23.62 E-value=1.5e+02 Score=23.36 Aligned_cols=42 Identities=12% Similarity=0.251 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHhhhhcchHHHHHHHHHHHHH
Q 025359 21 VCFVLVTISIIIEHIIHLIGKWLTKKHKRALYEALEKIKSEL 62 (254)
Q Consensus 21 Vc~v~V~iSl~~Er~lH~lgk~Lkkk~kkaL~eALeKiK~EL 62 (254)
+..|+++|+|+.==++-.+..+.+|.+.+.....+..++..+
T Consensus 6 llvviaIigiLaaia~p~~~~~~~~~~~~~~~~~~~~~~~a~ 47 (151)
T 3sok_A 6 LMIVVAIIGILAAFAIPAYNDYIARSQAAEGLTLADGLKVRI 47 (151)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677777777777888888888777665555555555443
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=21.15 E-value=1e+02 Score=19.67 Aligned_cols=23 Identities=17% Similarity=0.225 Sum_probs=18.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 025359 17 AVAVVCFVLVTISIIIEHIIHLI 39 (254)
Q Consensus 17 aVA~Vc~v~V~iSl~~Er~lH~l 39 (254)
.+|++|++++++.+.+--.|=++
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 47999999999999876665443
No 13
>4h62_K Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=20.01 E-value=59 Score=20.92 Aligned_cols=22 Identities=36% Similarity=0.416 Sum_probs=18.1
Q ss_pred hcchHHHHHHHHHHHHHHHHHH
Q 025359 46 KHKRALYEALEKIKSELMLLGF 67 (254)
Q Consensus 46 k~kkaL~eALeKiK~ELMLLGF 67 (254)
-+||+|-.--||+.|.|=||.-
T Consensus 7 vnkkalgqdtekmeeqldllsa 28 (40)
T 4h62_K 7 VNKKALGQDTEKMEEQLDLLSA 28 (40)
T ss_pred ccHHhhcccHHHHHHHHHHHHH
Confidence 3678999999999999887643
Done!