Query 042041
Match_columns 554
No_of_seqs 155 out of 249
Neff 4.2
Searched_HMMs 29240
Date Mon Mar 25 23:15:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042041.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042041hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1cn3_F Fragment of coat protei 56.7 7.1 0.00024 26.5 2.4 23 4-26 3-25 (29)
2 2l8s_A Integrin alpha-1; trans 50.9 22 0.00074 27.9 4.7 37 15-52 5-41 (54)
3 2knc_A Integrin alpha-IIB; tra 50.8 26 0.00089 27.4 5.1 37 15-52 8-44 (54)
4 2k1a_A Integrin alpha-IIB; sin 40.6 27 0.00092 26.0 3.6 36 15-51 6-41 (42)
5 2knc_B Integrin beta-3; transm 18.7 2.6E+02 0.009 22.9 6.3 23 171-193 35-57 (79)
6 2uwj_E Type III export protein 17.7 59 0.002 26.8 2.0 33 36-68 8-40 (70)
7 1uii_A Geminin; human, DNA rep 12.7 1.3E+02 0.0045 25.4 2.9 14 47-60 33-46 (83)
8 1rh4_A Right-handed coiled coi 12.5 1.2E+02 0.0043 21.3 2.3 16 51-66 18-33 (35)
9 3rhw_A Avermectin-sensitive gl 12.1 4.9E+02 0.017 25.8 7.5 54 23-78 280-334 (347)
10 4h62_K Mediator of RNA polymer 11.3 1.3E+02 0.0044 21.7 2.0 22 50-71 7-28 (40)
No 1
>1cn3_F Fragment of coat protein VP2; viral coat protein VP1, viral coat protein VP2, viral entry, viral protein; 2.20A {Polyomavirus}
Probab=56.69 E-value=7.1 Score=26.52 Aligned_cols=23 Identities=39% Similarity=0.917 Sum_probs=14.3
Q ss_pred CCCCCCCCCccCCCCCchhhHHH
Q 042041 4 GGGGGSAGRELDQTPTWAVSMVC 26 (554)
Q Consensus 4 g~~g~~~~rsLe~TPTWaVA~Vc 26 (554)
|||||+...--..||.|.+-.+.
T Consensus 3 ggggggaashqrvtpdwmlplil 25 (29)
T 1cn3_F 3 GGGGGGAASHQRVTPDWMLPLIL 25 (29)
T ss_dssp CCCCSTTTCCCCCEEGGGHHHHH
T ss_pred CCCCCccccccccCchhhHHHHH
Confidence 33333444446689999987654
No 2
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=50.90 E-value=22 Score=27.94 Aligned_cols=37 Identities=16% Similarity=0.284 Sum_probs=22.1
Q ss_pred CCCCCchhhHHHHHHHHHHHHHHHHHHHHHhHHhhcCc
Q 042041 15 DQTPTWAVSMVCGIIVALSFVLEGIFHLVAKIFHKRHK 52 (554)
Q Consensus 15 e~TPTWaVA~Vc~V~V~iSl~~Er~LH~Lgk~Lkkk~k 52 (554)
+..|.|.+.+-...-+++-.++=-++-++| +|||+++
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 468999654433333333345556777877 6777665
No 3
>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=50.81 E-value=26 Score=27.43 Aligned_cols=37 Identities=19% Similarity=0.157 Sum_probs=24.0
Q ss_pred CCCCCchhhHHHHHHHHHHHHHHHHHHHHHhHHhhcCc
Q 042041 15 DQTPTWAVSMVCGIIVALSFVLEGIFHLVAKIFHKRHK 52 (554)
Q Consensus 15 e~TPTWaVA~Vc~V~V~iSl~~Er~LH~Lgk~Lkkk~k 52 (554)
+..|.|.+.+-...-+++-.++=-++.++| +|||+++
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 468999765544444444455666788887 6777765
No 4
>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=40.58 E-value=27 Score=25.99 Aligned_cols=36 Identities=19% Similarity=0.167 Sum_probs=21.9
Q ss_pred CCCCCchhhHHHHHHHHHHHHHHHHHHHHHhHHhhcC
Q 042041 15 DQTPTWAVSMVCGIIVALSFVLEGIFHLVAKIFHKRH 51 (554)
Q Consensus 15 e~TPTWaVA~Vc~V~V~iSl~~Er~LH~Lgk~Lkkk~ 51 (554)
+..|.|.+.+-...-+++-.++=-++.++| +|||++
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 468999755444444444455566777777 566654
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=18.72 E-value=2.6e+02 Score=22.93 Aligned_cols=23 Identities=9% Similarity=0.166 Sum_probs=15.7
Q ss_pred HHhhHhhhhHHHHHHHHhhhhcc
Q 042041 171 TLGRLKIRKWKQWERETESEQHM 193 (554)
Q Consensus 171 ~Lg~~Kir~Wk~WE~e~~~~~~~ 193 (554)
+.....-|.++++|+|-+....+
T Consensus 35 ~~~i~DrrE~~kFEkE~~~~~w~ 57 (79)
T 2knc_B 35 LITIHDRKEFAKFEEERARAKWD 57 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHhcccc
Confidence 33333478899999998766544
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=17.70 E-value=59 Score=26.76 Aligned_cols=33 Identities=18% Similarity=0.167 Sum_probs=23.2
Q ss_pred HHHHHHHHHhHHhhcCchHHHHHHHHHHHHHHH
Q 042041 36 LEGIFHLVAKIFHKRHKYAMLEALEKIKGELMI 68 (554)
Q Consensus 36 ~Er~LH~Lgk~Lkkk~kkaL~eALeKiKeELML 68 (554)
+|..|+-.+.-..++=+--|..||-++|++|++
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 455566555444454455699999999999985
No 7
>1uii_A Geminin; human, DNA replication, cell cycle; 2.00A {Homo sapiens} SCOP: h.1.28.1
Probab=12.66 E-value=1.3e+02 Score=25.43 Aligned_cols=14 Identities=29% Similarity=0.496 Sum_probs=8.9
Q ss_pred HhhcCchHHHHHHH
Q 042041 47 FHKRHKYAMLEALE 60 (554)
Q Consensus 47 Lkkk~kkaL~eALe 60 (554)
+..+||+||.+||+
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 44566677777764
No 8
>1rh4_A Right-handed coiled coil tetramer; de novo design; 1.90A {Synthetic construct} SCOP: k.17.1.1
Probab=12.52 E-value=1.2e+02 Score=21.26 Aligned_cols=16 Identities=50% Similarity=0.598 Sum_probs=12.5
Q ss_pred CchHHHHHHHHHHHHH
Q 042041 51 HKYAMLEALEKIKGEL 66 (554)
Q Consensus 51 ~kkaL~eALeKiKeEL 66 (554)
-|-..+.||.|+|.|+
T Consensus 18 ikaeilaalkkikqei 33 (35)
T 1rh4_A 18 IKAEILAALKKIKQEI 33 (35)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3456888999999885
No 9
>3rhw_A Avermectin-sensitive glutamate-gated chloride CHA alpha; membrane protein, transport protein, Cys-loop receptor, LIGA ION channel, neurotransmitter receptor; HET: NAG IVM LMT UND; 3.26A {Caenorhabditis elegans} PDB: 3ri5_A* 3ria_A* 3rif_A*
Probab=12.10 E-value=4.9e+02 Score=25.82 Aligned_cols=54 Identities=9% Similarity=0.164 Sum_probs=37.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHhhcCc-hHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042041 23 SMVCGIIVALSFVLEGIFHLVAKIFHKRHK-YAMLEALEKIKGELMILGFISLLLTF 78 (554)
Q Consensus 23 A~Vc~V~V~iSl~~Er~LH~Lgk~Lkkk~k-kaL~eALeKiKeELMLLGFISLLLtv 78 (554)
-.+|.+||++|++-=-.++++.+ +++++ +++-+-+.++-...+-+.|+.+=++-
T Consensus 280 ~~~~~~~v~~slle~~~v~~l~~--~~~~~~~~~~~~~~~~~~~~~p~~~~i~n~~~ 334 (347)
T 3rhw_A 280 IGACMTFIFCALLEFALVNHIAN--AGTTEWNDISKRVDLISRALFPVLFFVFNILY 334 (347)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc--cCcchhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 36889999998887777777765 22111 46778888888877777777666553
No 10
>4h62_K Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=11.25 E-value=1.3e+02 Score=21.73 Aligned_cols=22 Identities=27% Similarity=0.282 Sum_probs=18.0
Q ss_pred cCchHHHHHHHHHHHHHHHHHH
Q 042041 50 RHKYAMLEALEKIKGELMILGF 71 (554)
Q Consensus 50 k~kkaL~eALeKiKeELMLLGF 71 (554)
-+||+|-+--||+.|.|=||.-
T Consensus 7 vnkkalgqdtekmeeqldllsa 28 (40)
T 4h62_K 7 VNKKALGQDTEKMEEQLDLLSA 28 (40)
T ss_pred ccHHhhcccHHHHHHHHHHHHH
Confidence 3678999999999999877643
Done!