Query 011363
Match_columns 487
No_of_seqs 143 out of 239
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 06:35:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011363.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/011363hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2knc_A Integrin alpha-IIB; tra 43.9 29 0.001 26.6 4.4 37 9-46 8-44 (54)
2 2l8s_A Integrin alpha-1; trans 36.2 18 0.0006 27.9 2.0 44 9-54 5-48 (54)
3 2k1a_A Integrin alpha-IIB; sin 35.7 37 0.0013 24.7 3.6 36 8-44 5-40 (42)
4 1zke_A Hypothetical protein HP 12.8 30 0.001 28.5 -0.9 19 46-64 64-82 (83)
5 2jwa_A Receptor tyrosine-prote 11.2 2.1E+02 0.007 21.1 3.2 11 37-47 31-41 (44)
6 2uwj_E Type III export protein 11.1 74 0.0025 25.7 0.9 33 30-62 8-40 (70)
7 1rh4_A Right-handed coiled coi 10.7 1.1E+02 0.0037 21.1 1.4 15 46-60 19-33 (35)
8 4h62_K Mediator of RNA polymer 10.3 1.3E+02 0.0045 21.2 1.8 21 44-64 7-27 (40)
9 2w7n_A TRFB transcriptional re 9.5 1.5E+02 0.005 25.1 2.2 25 435-459 75-99 (101)
10 1wy3_A Villin; structural prot 9.4 49 0.0017 23.2 -0.7 12 275-286 3-14 (35)
No 1
>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=43.94 E-value=29 Score=26.60 Aligned_cols=37 Identities=16% Similarity=0.246 Sum_probs=22.1
Q ss_pred ccCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 011363 9 EYTPTWVVALVCSVIVIISLAVERFLHYIGKVLKKNNQ 46 (487)
Q Consensus 9 e~TPTWaVA~Vc~v~v~iSl~~Er~lH~lgk~l~k~~k 46 (487)
+..|.|.+.+-...-+++=.++=.++.++| +|||+++
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 468999755443333333355566788887 5665554
No 2
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=36.21 E-value=18 Score=27.91 Aligned_cols=44 Identities=25% Similarity=0.363 Sum_probs=22.8
Q ss_pred ccCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchHHHHHH
Q 011363 9 EYTPTWVVALVCSVIVIISLAVERFLHYIGKVLKKNNQKPLFEALQ 54 (487)
Q Consensus 9 e~TPTWaVA~Vc~v~v~iSl~~Er~lH~lgk~l~k~~kkaL~eALe 54 (487)
+..|.|.+.+-...-+++=.++=-++-++| +|||++ ++..+.||
T Consensus 5 ~~vp~WiIi~svl~GLLLL~Lii~~LwK~G-FFKR~~-~~~~~~~~ 48 (54)
T 2l8s_A 5 GRVPLWVILLSAFAGLLLLMLLILALWKIG-FFKRPL-KKKMEKLE 48 (54)
T ss_dssp CCCCTHHHHHHHHHHHHHHHHHHHHHHHHH-HTTSCC-SCCCCC--
T ss_pred ccCchHHHHHHHHHHHHHHHHHHHHHHHcC-cccCCC-cchhhHHh
Confidence 468999644333322333344556777777 555544 44444444
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=35.73 E-value=37 Score=24.72 Aligned_cols=36 Identities=17% Similarity=0.226 Sum_probs=19.9
Q ss_pred cccCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 011363 8 LEYTPTWVVALVCSVIVIISLAVERFLHYIGKVLKKN 44 (487)
Q Consensus 8 Le~TPTWaVA~Vc~v~v~iSl~~Er~lH~lgk~l~k~ 44 (487)
-+..|.|.+.+-...-+++=.++=.++.++| +|||+
T Consensus 5 ~~~vp~wiIi~s~l~GLllL~li~~~LwK~G-FFkR~ 40 (42)
T 2k1a_A 5 ERAIPIWWVLVGVLGGLLLLTILVLAMWKVG-FFKRN 40 (42)
T ss_dssp CCCCCHHHHHHHHHHHHHHHHHHHHHHHHTT-TTCCC
T ss_pred cCCcchHHHHHHHHHHHHHHHHHHHHHHHcC-cccCC
Confidence 3468999654433333333345556777776 45443
No 4
>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=12.83 E-value=30 Score=28.54 Aligned_cols=19 Identities=47% Similarity=0.739 Sum_probs=15.1
Q ss_pred CchHHHHHHHHHHHHHHHH
Q 011363 46 QKPLFEALQKIKEELMLLG 64 (487)
Q Consensus 46 kkaL~eALeKiK~ELMLLG 64 (487)
=|+..+||+|+|.|+...|
T Consensus 64 LKe~IdaLNK~Kke~lv~~ 82 (83)
T 1zke_A 64 LKELINALNKIKKGLLVFG 82 (83)
T ss_dssp HHHHHHHHHHHHGGGCSTT
T ss_pred HHHHHHHHHHHHHHHhhcC
Confidence 3578899999999986544
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=11.17 E-value=2.1e+02 Score=21.07 Aligned_cols=11 Identities=36% Similarity=0.694 Sum_probs=6.6
Q ss_pred HHHHHhhcCCc
Q 011363 37 IGKVLKKNNQK 47 (487)
Q Consensus 37 lgk~l~k~~kk 47 (487)
++=|++||+++
T Consensus 31 ~~~~~RRR~~~ 41 (44)
T 2jwa_A 31 FGILIKRRQQK 41 (44)
T ss_dssp HHHHHHHHCSC
T ss_pred HHhheehhhhh
Confidence 34577776654
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=11.10 E-value=74 Score=25.66 Aligned_cols=33 Identities=21% Similarity=0.149 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHhhcCCchHHHHHHHHHHHHHH
Q 011363 30 VERFLHYIGKVLKKNNQKPLFEALQKIKEELML 62 (487)
Q Consensus 30 ~Er~lH~lgk~l~k~~kkaL~eALeKiK~ELML 62 (487)
+|..++-.+.-..++=+--|..||.++|.+|++
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 344454444333444456799999999999985
No 7
>1rh4_A Right-handed coiled coil tetramer; de novo design; 1.90A {Synthetic construct} SCOP: k.17.1.1
Probab=10.71 E-value=1.1e+02 Score=21.11 Aligned_cols=15 Identities=40% Similarity=0.707 Sum_probs=12.1
Q ss_pred CchHHHHHHHHHHHH
Q 011363 46 QKPLFEALQKIKEEL 60 (487)
Q Consensus 46 kkaL~eALeKiK~EL 60 (487)
|-..+.||.|||.|+
T Consensus 19 kaeilaalkkikqei 33 (35)
T 1rh4_A 19 KAEILAALKKIKQEI 33 (35)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh
Confidence 557888899999885
No 8
>4h62_K Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=10.26 E-value=1.3e+02 Score=21.20 Aligned_cols=21 Identities=38% Similarity=0.458 Sum_probs=17.7
Q ss_pred cCCchHHHHHHHHHHHHHHHH
Q 011363 44 NNQKPLFEALQKIKEELMLLG 64 (487)
Q Consensus 44 ~~kkaL~eALeKiK~ELMLLG 64 (487)
-+||+|-.--||+.|.|=||.
T Consensus 7 vnkkalgqdtekmeeqldlls 27 (40)
T 4h62_K 7 VNKKALGQDTEKMEEQLDLLS 27 (40)
T ss_pred ccHHhhcccHHHHHHHHHHHH
Confidence 367899999999999988764
No 9
>2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli}
Probab=9.47 E-value=1.5e+02 Score=25.08 Aligned_cols=25 Identities=32% Similarity=0.395 Sum_probs=18.8
Q ss_pred ccccchhHHHHHHhHHHHHHhhhcC
Q 011363 435 KAIFDEHIQDGLVGWARMAKKKNTN 459 (487)
Q Consensus 435 ~~if~e~v~~~l~~W~~~akkk~~~ 459 (487)
..+.+++.+..++.|.+.|++|+..
T Consensus 75 ~v~lP~~~a~~v~~~~~~a~~~~~~ 99 (101)
T 2w7n_A 75 TAVLPEHQAYIVRKWEADAKKKQET 99 (101)
T ss_dssp EEEECHHHHHHHHHHHHHHHC----
T ss_pred eeecCHHHHHHHHHHHHHHHHhhcc
Confidence 4568899999999999999987653
No 10
>1wy3_A Villin; structural protein; HET: NLE; 0.95A {Synthetic} PDB: 1wy4_A 1yri_A* 1yrf_A* 2f4k_A* 1vii_A 3trv_A* 3trw_A 3tjw_B* 3trv_B* 3try_A* 2ppz_A 2jm0_A* 3tjw_A* 3iur_B*
Probab=9.43 E-value=49 Score=23.20 Aligned_cols=12 Identities=42% Similarity=0.825 Sum_probs=9.2
Q ss_pred hhccccceeehh
Q 011363 275 EADFKKVVGISW 286 (487)
Q Consensus 275 E~DFk~VVGIS~ 286 (487)
++||..|.|+|.
T Consensus 3 d~dF~~vFgmsr 14 (35)
T 1wy3_A 3 DEDFKAVFGMTR 14 (35)
T ss_dssp HHHHHHHHSSCH
T ss_pred HHHHHHHHCCCH
Confidence 578888888875
Done!