Query 010805
Match_columns 500
No_of_seqs 142 out of 247
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 14:37:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010805.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/010805hhsearch_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 44.5 28 0.00097 26.9 4.4 37 12-49 5-41 (54)
2 2knc_A Integrin alpha-IIB; tra 42.5 28 0.00096 26.8 4.1 37 12-49 8-44 (54)
3 2k1a_A Integrin alpha-IIB; sin 35.9 40 0.0014 24.7 3.8 37 11-48 5-41 (42)
4 2uwj_E Type III export protein 17.2 62 0.0021 26.2 2.0 33 33-65 8-40 (70)
5 2knc_B Integrin beta-3; transm 14.5 2.4E+02 0.0083 22.8 5.0 21 170-190 41-62 (79)
6 1zke_A Hypothetical protein HP 13.0 32 0.0011 28.5 -0.7 18 50-67 65-82 (83)
7 1rh4_A Right-handed coiled coi 11.9 1.1E+02 0.0038 21.1 1.8 15 49-63 19-33 (35)
8 4h63_Q Mediator of RNA polymer 10.0 2.5E+02 0.0086 29.8 4.7 27 49-75 29-56 (469)
9 2jwa_A Receptor tyrosine-prote 9.3 2.2E+02 0.0075 21.0 2.8 9 41-49 32-40 (44)
10 4h62_K Mediator of RNA polymer 8.3 2E+02 0.0067 20.4 2.0 21 47-67 7-27 (40)
No 1
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=44.46 E-value=28 Score=26.86 Aligned_cols=37 Identities=24% Similarity=0.500 Sum_probs=22.4
Q ss_pred ccCCcchhhHHHHHHHHHHHHHHHHHHHHhhhhhhcCc
Q 010805 12 EHTPTWVVAVVCFVIVLISFCAERGLHGLGKFLKKNKQ 49 (500)
Q Consensus 12 e~TPTWaVA~Vc~v~v~iSl~~Er~lH~lgk~lkk~~k 49 (500)
+..|.|.+.+-...-+++-.++=-++-++| +|||+++
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 467999755444334444455556777777 6676654
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=42.51 E-value=28 Score=26.83 Aligned_cols=37 Identities=24% Similarity=0.389 Sum_probs=24.2
Q ss_pred ccCCcchhhHHHHHHHHHHHHHHHHHHHHhhhhhhcCc
Q 010805 12 EHTPTWVVAVVCFVIVLISFCAERGLHGLGKFLKKNKQ 49 (500)
Q Consensus 12 e~TPTWaVA~Vc~v~v~iSl~~Er~lH~lgk~lkk~~k 49 (500)
+..|.|.+.+-...-+++-.++=-++.++| +|||+++
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 467999765555444555556667788887 6676654
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=35.92 E-value=40 Score=24.66 Aligned_cols=37 Identities=24% Similarity=0.365 Sum_probs=23.1
Q ss_pred cccCCcchhhHHHHHHHHHHHHHHHHHHHHhhhhhhcC
Q 010805 11 LEHTPTWVVAVVCFVIVLISFCAERGLHGLGKFLKKNK 48 (500)
Q Consensus 11 Le~TPTWaVA~Vc~v~v~iSl~~Er~lH~lgk~lkk~~ 48 (500)
-+..|.|.+.+-...-+++-.++=-++.++| ++||++
T Consensus 5 ~~~vp~wiIi~s~l~GLllL~li~~~LwK~G-FFkR~~ 41 (42)
T 2k1a_A 5 ERAIPIWWVLVGVLGGLLLLTILVLAMWKVG-FFKRNR 41 (42)
T ss_dssp CCCCCHHHHHHHHHHHHHHHHHHHHHHHHTT-TTCCCC
T ss_pred cCCcchHHHHHHHHHHHHHHHHHHHHHHHcC-cccCCC
Confidence 3468999765544444444455667778877 556543
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=17.20 E-value=62 Score=26.20 Aligned_cols=33 Identities=21% Similarity=0.094 Sum_probs=22.8
Q ss_pred HHHHHHHHhhhhhhcCchHHHHHHHHHHHHHHH
Q 010805 33 AERGLHGLGKFLKKNKQDALFEALQKLKEELML 65 (500)
Q Consensus 33 ~Er~lH~lgk~lkk~~kkaL~eALeKiK~ELML 65 (500)
+|..|+-.+.-..++=+--|..||.++|++|++
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 455566544444444455699999999999986
No 5
>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=14.53 E-value=2.4e+02 Score=22.81 Aligned_cols=21 Identities=10% Similarity=0.289 Sum_probs=14.8
Q ss_pred hhchHHHHHHHhcC-CCcCCCC
Q 010805 170 IRQWKHWEDSVRNQ-PQLERDP 190 (500)
Q Consensus 170 ir~Wk~WE~e~~~~-~~~~~~p 190 (500)
-|.++++|+|-+.. .+.+.+|
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 68999999997764 3344445
No 6
>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=13.02 E-value=32 Score=28.51 Aligned_cols=18 Identities=39% Similarity=0.746 Sum_probs=14.9
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 010805 50 DALFEALQKLKEELMLLG 67 (500)
Q Consensus 50 kaL~eALeKiK~ELMLLG 67 (500)
|+..+||.|+|+|+...|
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 7
>1rh4_A Right-handed coiled coil tetramer; de novo design; 1.90A {Synthetic construct} SCOP: k.17.1.1
Probab=11.88 E-value=1.1e+02 Score=21.13 Aligned_cols=15 Identities=33% Similarity=0.693 Sum_probs=12.0
Q ss_pred chHHHHHHHHHHHHH
Q 010805 49 QDALFEALQKLKEEL 63 (500)
Q Consensus 49 kkaL~eALeKiK~EL 63 (500)
|-....||.|+|.|+
T Consensus 19 kaeilaalkkikqei 33 (35)
T 1rh4_A 19 KAEILAALKKIKQEI 33 (35)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh
Confidence 456888899999885
No 8
>4h63_Q Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; 3.40A {Schizosaccharomyces pombe}
Probab=10.02 E-value=2.5e+02 Score=29.76 Aligned_cols=27 Identities=33% Similarity=0.422 Sum_probs=23.6
Q ss_pred chHHHHHHHHHHHHHHH-HHHHHHHHHH
Q 010805 49 QDALFEALQKLKEELML-LGFISLLLTV 75 (500)
Q Consensus 49 kkaL~eALeKiK~ELML-LGFISLLLtv 75 (500)
|+.+.+-++-...|+|+ |=|+||||+-
T Consensus 29 R~Eml~~i~~A~nE~slaLDfvSLLLS~ 56 (469)
T 4h63_Q 29 KKELIEQIMIAQTECSLALDMTSLLLSK 56 (469)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 56789999999999998 9999999963
No 9
>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=9.29 E-value=2.2e+02 Score=21.03 Aligned_cols=9 Identities=33% Similarity=0.730 Sum_probs=5.6
Q ss_pred hhhhhhcCc
Q 010805 41 GKFLKKNKQ 49 (500)
Q Consensus 41 gk~lkk~~k 49 (500)
+=|++|+++
T Consensus 32 ~~~~RRR~~ 40 (44)
T 2jwa_A 32 GILIKRRQQ 40 (44)
T ss_dssp HHHHHHHCS
T ss_pred Hhheehhhh
Confidence 446777655
No 10
>4h62_K Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=8.27 E-value=2e+02 Score=20.44 Aligned_cols=21 Identities=33% Similarity=0.406 Sum_probs=17.5
Q ss_pred cCchHHHHHHHHHHHHHHHHH
Q 010805 47 NKQDALFEALQKLKEELMLLG 67 (500)
Q Consensus 47 ~~kkaL~eALeKiK~ELMLLG 67 (500)
-+||+|-.--||+.|.|=||.
T Consensus 7 vnkkalgqdtekmeeqldlls 27 (40)
T 4h62_K 7 VNKKALGQDTEKMEEQLDLLS 27 (40)
T ss_pred ccHHhhcccHHHHHHHHHHHH
Confidence 357899999999999987764
Done!