Query 014676
Match_columns 420
No_of_seqs 56 out of 58
Neff 3.2
Searched_HMMs 29240
Date Mon Mar 25 15:51:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014676.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/014676hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2l2t_A Receptor tyrosine-prote 56.0 9.6 0.00033 27.9 3.2 31 181-211 11-41 (44)
2 2ks1_B Epidermal growth factor 53.8 6.5 0.00022 28.7 2.0 29 182-210 13-41 (44)
3 2jwa_A Receptor tyrosine-prote 47.4 15 0.00052 26.9 3.1 28 182-210 14-41 (44)
4 3bho_A Cleavage and polyadenyl 44.9 3.5 0.00012 38.7 -0.8 38 345-382 39-80 (208)
5 3uaf_A TTR-52; beta barrel/san 27.1 32 0.0011 29.2 2.4 27 228-262 3-29 (117)
6 1zrj_A E1B-55KDA-associated pr 26.6 12 0.00041 27.8 -0.3 29 334-362 16-48 (50)
7 3zqp_A Terminase small subunit 24.8 15 0.00053 33.1 0.0 29 282-310 25-53 (164)
8 1pi7_A VPU protein, U ORF prot 24.7 68 0.0023 22.6 3.3 21 185-205 7-27 (36)
9 3udc_A Small-conductance mecha 24.3 1.2E+02 0.0042 28.1 6.0 45 183-234 94-139 (285)
10 3r4d_B Spike glycoprotein; imm 21.6 83 0.0028 30.4 4.3 24 370-401 126-149 (288)
11 2vpz_C Hypothetical membrane s 21.0 85 0.0029 28.9 4.2 34 138-178 3-37 (253)
No 1
>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}
Probab=56.04 E-value=9.6 Score=27.93 Aligned_cols=31 Identities=6% Similarity=0.190 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhchhhhhh
Q 014676 181 AVVLVAVAAVVGPLFIGMIWNCVWGRRGLLG 211 (420)
Q Consensus 181 ~~ll~~~~~~f~~v~a~~iwN~~~~~~~i~r 211 (420)
+|..-|+++++++++.++.|-+||+||.+.+
T Consensus 11 aIA~gVVgGv~~v~ii~~~~~~~~RRRr~~~ 41 (44)
T 2l2t_A 11 LIAAGVIGGLFILVIVGLTFAVYVRRKSIKK 41 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTCSSC
T ss_pred eEEEeehHHHHHHHHHHHHHHHHhhhhhhhh
Confidence 3444555555555555666667777655443
No 2
>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}
Probab=53.84 E-value=6.5 Score=28.71 Aligned_cols=29 Identities=17% Similarity=0.173 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhchhhhh
Q 014676 182 VVLVAVAAVVGPLFIGMIWNCVWGRRGLL 210 (420)
Q Consensus 182 ~ll~~~~~~f~~v~a~~iwN~~~~~~~i~ 210 (420)
|..-|+++++++++.++.|-+||+|+...
T Consensus 13 IA~gVVgGv~~~~ii~~~~~~~~RRr~~~ 41 (44)
T 2ks1_B 13 IATGMVGALLLLLVVALGIGLFMRRRHIV 41 (44)
T ss_dssp STHHHHHHHHHHHHHHHHHHHHHHTTTCC
T ss_pred EEeehhHHHHHHHHHHHHHHHHhhhhHhh
Confidence 44455665555555566666777765543
No 3
>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=47.38 E-value=15 Score=26.93 Aligned_cols=28 Identities=14% Similarity=0.351 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhchhhhh
Q 014676 182 VVLVAVAAVVGPLFIGMIWNCVWGRRGLL 210 (420)
Q Consensus 182 ~ll~~~~~~f~~v~a~~iwN~~~~~~~i~ 210 (420)
+...+++ ++.+++.+++|-+|++||.+.
T Consensus 14 Ia~~vVG-vll~vi~~l~~~~~~RRR~~~ 41 (44)
T 2jwa_A 14 IISAVVG-ILLVVVLGVVFGILIKRRQQK 41 (44)
T ss_dssp HHHHHHH-HHHHHHHHHHHHHHHHHHCSC
T ss_pred hHHHHHH-HHHHHHHHHHHHhheehhhhh
Confidence 4445555 556666677777777765543
No 4
>3bho_A Cleavage and polyadenylation specificity factor subunit 5; CPSF5, RNA processing, cleavage factor, diadenosine tetraphosphate, mRNA processing; HET: B4P; 1.80A {Homo sapiens} PDB: 3bap_A 3mdg_A 3mdi_A 2cl3_A 3n9u_A 3q2s_A 3q2t_A 2j8q_A 3p5t_A 3p6y_A
Probab=44.85 E-value=3.5 Score=38.71 Aligned_cols=38 Identities=32% Similarity=0.443 Sum_probs=29.6
Q ss_pred CCCccceeEEecceeeeCCEEEEEEEEEeeCc----eeEEeC
Q 014676 345 LSSDDRIMRLKEGYIKEGSTVSVMGVVRRHDN----VLMIVP 382 (420)
Q Consensus 345 LSsd~r~mRlkEGyIkEGstvSVmGvvkr~~~----~~mi~p 382 (420)
.+-.+|.+|++|-|-+.|++++|-|++-.|+. +|++-.
T Consensus 39 ~s~~~r~~rl~~~y~~~g~R~sV~avil~~~~~~phVLLlq~ 80 (208)
T 3bho_A 39 SSVAARFQRMREEFDKIGMRRTVEGVLIVHEHRLPHVLLLQL 80 (208)
T ss_dssp SSHHHHHHHHHHHHHHHCSEEEEEEEEEEEETTEEEEEEEEE
T ss_pred ccHHHHHHHHHHHHHhhCCceEEEEEEEEcCCCCcEEEEEEc
Confidence 33346899999999999999999999876553 555543
No 5
>3uaf_A TTR-52; beta barrel/sandwich, cell engulfment, secreted, protein BIN; 2.01A {Caenorhabditis elegans}
Probab=27.15 E-value=32 Score=29.22 Aligned_cols=27 Identities=26% Similarity=0.524 Sum_probs=20.0
Q ss_pred cEEEEEEEEEeccccccCccCCCCceeEEeeeEEE
Q 014676 228 QYVKVTGVVTCGSIPLESSYQRVPRCVYVSTELHE 262 (420)
Q Consensus 228 q~VKItG~VtcG~~PL~ss~qkv~rCVYtst~LyE 262 (420)
|-|-|+|+..||+.|- ++.++ .++|+|
T Consensus 3 qsV~V~G~L~C~~~Pa--~~~~V------~V~L~d 29 (117)
T 3uaf_A 3 SCLMATGVLKCPTDPE--AVKKV------HIDLWD 29 (117)
T ss_dssp EEEEEEEEEECTTCGG--GGSSC------EEEEEE
T ss_pred EEEEEEEEEEeCCccC--CCCCE------EEEEEe
Confidence 7799999999999972 33344 356776
No 6
>1zrj_A E1B-55KDA-associated protein 5 isoform C; SAP domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.140.2.1
Probab=26.64 E-value=12 Score=27.85 Aligned_cols=29 Identities=17% Similarity=0.144 Sum_probs=20.6
Q ss_pred HHHHHHHhhcCCCCcc----ceeEEecceeeeC
Q 014676 334 PSFLRWLADRNLSSDD----RIMRLKEGYIKEG 362 (420)
Q Consensus 334 ~~f~~WL~erNLSsd~----r~mRlkEGyIkEG 362 (420)
.+|+.+|++|||+..+ -+=||+|-.-+||
T Consensus 16 ~eLK~eLk~RgL~~~G~Ka~Li~RL~~~~~~e~ 48 (50)
T 1zrj_A 16 NELREELQRRGLDTRGLKAELAERLQAALSGPS 48 (50)
T ss_dssp HHHHHHHHHTTCCCCSCHHHHHHHHHHHHCCCC
T ss_pred HHHHHHHHHcCCCCCCcHHHHHHHHHHHHhccc
Confidence 6899999999999987 2335555444444
No 7
>3zqp_A Terminase small subunit; DNA-binding protein, DNA packaging; 3.00A {Bacillus phage SF6} PDB: 3zqq_A
Probab=24.79 E-value=15 Score=33.07 Aligned_cols=29 Identities=17% Similarity=0.235 Sum_probs=0.0
Q ss_pred ceeeeeEeeceEEEecCCceeEEEEecCC
Q 014676 282 SRHLEKYVSDFYISDFQSGLRALVKAGYG 310 (420)
Q Consensus 282 l~~~E~~~~DFYIsD~~sG~RAlVKaG~G 310 (420)
|+-..+..++.||.|+-+.-.|++||||.
T Consensus 25 LT~KQ~~F~~eYi~~~~Nat~Aa~kAGYs 53 (164)
T 3zqp_A 25 LSPKQERFIEEYFINDMNATKAAIAAGYS 53 (164)
T ss_dssp -----------------------------
T ss_pred CCHHHHHHHHHHHhcCCCHHHHHHHcCCC
Confidence 33344778899999986788999999995
No 8
>1pi7_A VPU protein, U ORF protein; alpha helix, viral protein; NMR {Human immunodeficiency virus 1} SCOP: j.35.1.1 PDB: 1pi8_A 1pje_A 2gof_A 2goh_A 2jpx_A
Probab=24.71 E-value=68 Score=22.57 Aligned_cols=21 Identities=29% Similarity=0.365 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHhhhhhhhhc
Q 014676 185 VAVAAVVGPLFIGMIWNCVWG 205 (420)
Q Consensus 185 ~~~~~~f~~v~a~~iwN~~~~ 205 (420)
.+++..++++.|.+.|.+.|-
T Consensus 7 ~ivalivalIiaIVVWtiv~i 27 (36)
T 1pi7_A 7 AIVALVVAIIIAIVVWSIVII 27 (36)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 445555677777888866554
No 9
>3udc_A Small-conductance mechanosensitive channel, C-TER peptide from small-conductance...; membrane protein; 3.35A {Thermoanaerobacter tengcongensis} PDB: 3t9n_A*
Probab=24.32 E-value=1.2e+02 Score=28.15 Aligned_cols=45 Identities=24% Similarity=0.175 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhc-hhhhhhccccCCCcccccCcCCcEEEEEE
Q 014676 183 VLVAVAAVVGPLFIGMIWNCVWG-RRGLLGFVKKYPDTELRGAIDGQYVKVTG 234 (420)
Q Consensus 183 ll~~~~~~f~~v~a~~iwN~~~~-~~~i~rfl~k~Pd~~lr~a~dGq~VKItG 234 (420)
-|++.+++.++++++-..++.-. =.++.=++. +.++.|++|+|-|
T Consensus 94 ~l~a~~g~~g~aig~a~q~~l~n~~~Gi~i~~~-------~pf~vGD~I~i~~ 139 (285)
T 3udc_A 94 SLLAVAGIGSLAIGFGAQNLVKDMISGFFIIFE-------DQFSVGDYVTING 139 (285)
T ss_dssp HHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHT-------TSCCTTCEEEETT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------CCccCCCEEEECC
Confidence 34555555666665554433222 223333333 3688999999854
No 10
>3r4d_B Spike glycoprotein; immunoglobulin, beta-sandwich, mceacam1A - immunoglobulin FO spike NTD - galectin-like beta-sandwich fold; HET: NAG; 3.10A {Murine hepatitis virus}
Probab=21.62 E-value=83 Score=30.43 Aligned_cols=24 Identities=33% Similarity=0.686 Sum_probs=21.3
Q ss_pred EEEeeCceeEEeCCCCcccccceeceeccccc
Q 014676 370 VVRRHDNVLMIVPSTEPVSTGCQWSRCLLPTY 401 (420)
Q Consensus 370 vvkr~~~~~mi~pP~e~vstGcqw~~~llP~~ 401 (420)
|+|-+++.+|| +-||..-|.+|-.
T Consensus 126 VveP~ngil~~--------svCqYtmCe~P~T 149 (288)
T 3r4d_B 126 VIEPYNGVIMA--------SVCQYTICQLPYT 149 (288)
T ss_dssp EEEEETTEEEE--------EEECCCBBSSCCE
T ss_pred EEeccCCEEEE--------eeeehhhhcCCcc
Confidence 67889999998 7899999999974
No 11
>2vpz_C Hypothetical membrane spanning protein; oxidoreductase, molybdopterin guanine dinucleotide, iron-sulfur, metal-binding, molybdopterin; HET: MGD; 2.40A {Thermus thermophilus} PDB: 2vpx_C* 2vpw_C* 2vpy_C*
Probab=20.97 E-value=85 Score=28.94 Aligned_cols=34 Identities=18% Similarity=0.082 Sum_probs=23.5
Q ss_pred cccccC-cceeeeeEechhhHHHHHHHHHHHHHhhheeeeee
Q 014676 138 AVTSLG-EDVKVGFRVSRAVAWVVMVVVAMGVMVGAFLMVAV 178 (420)
Q Consensus 138 avt~l~-~~~~~~~~vpk~vlw~vi~l~~~g~~~G~f~l~av 178 (420)
.||+++ ++.-.| .|.+.-+|..|+.+|+|++++.
T Consensus 3 ~v~~~~~~~~~Wg-------~~i~~y~f~~g~aaG~~~~~~~ 37 (253)
T 2vpz_C 3 EFYGLPNAQEFWH-------WTNALHFVLVGLAGGVALLAAL 37 (253)
T ss_dssp EEESCCCCSCSSC-------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred eeeCCCCCCCCcc-------hHHHHHHHHHHHHHHHHHHHHH
Confidence 366777 554444 3666777778899999888764
Done!