Query 043130
Match_columns 157
No_of_seqs 47 out of 49
Neff 3.1
Searched_HMMs 29240
Date Mon Mar 25 23:13:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043130.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043130hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1jek_B ENV polyprotein; envelo 84.0 0.95 3.3E-05 28.2 3.0 25 85-110 1-25 (36)
2 3vie_B Sifuvirtide; 6-helix bu 69.4 4.2 0.00014 24.5 2.9 24 85-109 2-25 (37)
3 3vh7_B CP32M; 6-helix bundle, 67.8 3 0.0001 24.6 1.9 24 85-109 9-32 (34)
4 2z2t_D Fusion inhibitor peptid 66.9 5.5 0.00019 23.8 3.0 24 85-109 1-24 (36)
5 3vgx_D Envelope glycoprotein G 66.4 3.3 0.00011 24.0 1.9 23 85-108 7-29 (32)
6 3o3y_A Chimeric alpha+alpha/be 60.1 5.4 0.00018 24.4 2.1 25 85-110 3-27 (40)
7 3t76_A VANU, transcriptional r 58.7 1.2 4E-05 30.6 -1.2 42 53-94 12-62 (88)
8 3nku_A DRRA, SIDM; posttransla 43.6 15 0.00053 29.6 2.9 40 64-108 40-79 (213)
9 1jq0_A GP41 envelope protein; 43.4 18 0.00063 25.6 3.0 26 83-109 44-69 (84)
10 1df4_A HIV-1 envelope glycopro 39.1 20 0.00068 24.4 2.5 23 84-107 39-61 (68)
11 2x7r_B Transmembrane protein G 36.5 32 0.0011 23.1 3.2 26 85-111 7-32 (63)
12 3p30_A HIV-1 GP41; HIV, GP41, 34.1 28 0.00096 25.2 2.8 25 84-109 53-77 (96)
13 1v7m_V Thrombopoietin; FAB fra 31.4 76 0.0026 25.2 5.1 49 65-113 11-75 (163)
14 1env_A HIV-1 envelope protein 29.4 36 0.0012 25.9 2.8 27 83-110 83-109 (123)
15 1qbz_A Protein (SIV GP41 ectod 28.9 39 0.0013 25.6 2.9 25 85-110 85-109 (123)
16 2kix_A BM2 protein; channel, t 25.8 19 0.00065 21.8 0.5 15 142-156 7-21 (33)
17 3nr1_A HD domain-containing pr 24.8 73 0.0025 24.4 3.8 49 63-120 116-164 (178)
18 3o3x_A GP41-5; helix bundle, v 24.1 50 0.0017 26.7 2.9 24 85-109 42-65 (198)
19 3s8q_A R-M controller protein; 23.5 69 0.0024 19.8 3.0 37 56-92 2-47 (82)
20 1p5s_A RAS GTPase-activating-l 23.3 36 0.0012 26.9 1.9 60 53-115 8-71 (203)
21 3o3x_A GP41-5; helix bundle, v 21.4 61 0.0021 26.2 2.9 24 85-109 123-146 (198)
22 1y9j_A SEC1 family domain cont 21.4 49 0.0017 25.4 2.2 28 53-80 8-38 (159)
23 1gp8_A Protein (scaffolding pr 21.0 42 0.0014 21.3 1.5 29 88-116 12-40 (40)
No 1
>1jek_B ENV polyprotein; envelope glycoprotein, retrovirus, HIV, SIV, GP41, viral Pro; 1.50A {Synthetic} SCOP: h.3.2.1
Probab=83.98 E-value=0.95 Score=28.19 Aligned_cols=25 Identities=12% Similarity=0.363 Sum_probs=18.4
Q ss_pred chHHHHHhhhccchhHHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQA 110 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ~ 110 (157)
.|++|||+-.. |.+.|..++.--|.
T Consensus 1 TWqqWereI~~-~t~nIy~LLeeAq~ 25 (36)
T 1jek_B 1 XWQQWEEEIEQ-HEGNLSLLLREAAL 25 (36)
T ss_dssp -CHHHHHHHHH-HHHHHHHHHHHHHH
T ss_pred CccHHHHHHHH-HHHHHHHHHHHHHH
Confidence 49999999765 88888877765443
No 2
>3vie_B Sifuvirtide; 6-helix bundle, membrane fusion inhibition, HIV, viral prote antiviral protein complex; 1.80A {Human immunodeficiency virus 1}
Probab=69.41 E-value=4.2 Score=24.46 Aligned_cols=24 Identities=25% Similarity=0.612 Sum_probs=17.6
Q ss_pred chHHHHHhhhccchhHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQ 109 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ 109 (157)
.||+|||+- .+|-+.+..++.--|
T Consensus 2 TW~qWekei-~n~t~~Iy~lle~sq 25 (37)
T 3vie_B 2 SWETWEREI-ENYTRQIYRILEESQ 25 (37)
T ss_dssp CHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred cHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 599999987 447777777665444
No 3
>3vh7_B CP32M; 6-helix bundle, membrane fusion inhibition, membrane protein inhibitor complex; 2.02A {Human immunodeficiency virus type 1} PDB: 3vgy_D
Probab=67.84 E-value=3 Score=24.58 Aligned_cols=24 Identities=33% Similarity=0.783 Sum_probs=17.4
Q ss_pred chHHHHHhhhccchhHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQ 109 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ 109 (157)
.||+|||+- .+|-+.+..++.--|
T Consensus 9 TW~qWekei-~n~t~~Iy~lle~sq 32 (34)
T 3vh7_B 9 TWMEWEREI-ENYTKLIYKILEESQ 32 (34)
T ss_dssp CHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred cHHHHHHHH-HHHHHHHHHHHHHHc
Confidence 599999987 458777777665433
No 4
>2z2t_D Fusion inhibitor peptide SC34EK; coiled-coil, viral protein/inhibitor complex; 2.10A {Synthetic}
Probab=66.86 E-value=5.5 Score=23.77 Aligned_cols=24 Identities=33% Similarity=0.673 Sum_probs=17.2
Q ss_pred chHHHHHhhhccchhHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQ 109 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ 109 (157)
.||+|||+-. +|.+.+..++.--|
T Consensus 1 TW~qWekei~-n~t~~Iy~lle~sq 24 (36)
T 2z2t_D 1 XWLEWDRKIE-EYTKKIEELIKKSQ 24 (36)
T ss_dssp -CHHHHHHHH-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 4999998764 48888877766544
No 5
>3vgx_D Envelope glycoprotein GP160; 6-helix bundle, membrane fusion, membrane protein; HET: GOL; 1.74A {Human immunodeficiency virus type 1}
Probab=66.42 E-value=3.3 Score=23.99 Aligned_cols=23 Identities=30% Similarity=0.768 Sum_probs=16.9
Q ss_pred chHHHHHhhhccchhHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVL 108 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~L 108 (157)
.||+|||+- .+|-+.+..++.--
T Consensus 7 TW~qw~kei-~n~t~~Iy~lle~s 29 (32)
T 3vgx_D 7 TWMEWDREI-NNYTSLIHSLIEES 29 (32)
T ss_dssp CHHHHHHHH-HHHHHHHHHHHHHH
T ss_pred cHHHHHHHH-HHHHHHHHHHHHHH
Confidence 499999987 45777777766533
No 6
>3o3y_A Chimeric alpha+alpha/beta peptide based on the CH sequence of GP41; HIV fusion inhibitor, HIV GP41, mixed alpha-residue / beta-R backbone; HET: XPC B3E XCP; 1.35A {Synthetic} PDB: 3f4y_D 3g7a_B* 4dzu_B 4dzv_B* 3o42_B* 3o3z_B* 3f4z_A* 3f50_B* 3o43_B* 3o40_B*
Probab=60.11 E-value=5.4 Score=24.39 Aligned_cols=25 Identities=20% Similarity=0.493 Sum_probs=18.1
Q ss_pred chHHHHHhhhccchhHHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQA 110 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ~ 110 (157)
.||+|||+- .+|-+.+..++.--|.
T Consensus 3 TW~qWekeI-~n~t~~Iy~lle~sq~ 27 (40)
T 3o3y_A 3 TWEAWDXAI-AXYAXRIEXLIXAAQX 27 (40)
T ss_dssp CTTTHHHHH-HHHHHHHHHHHHHHHH
T ss_pred cHHHhhhhh-hhHHHHHHHHHHHHHH
Confidence 599999987 4577777776665443
No 7
>3t76_A VANU, transcriptional regulator vanug; structural genomics, center for structural genomics of infec diseases, csgid; HET: MSE; 1.12A {Enterococcus faecalis} PDB: 3t75_A* 3tyr_A* 3tys_A*
Probab=58.67 E-value=1.2 Score=30.62 Aligned_cols=42 Identities=14% Similarity=0.082 Sum_probs=29.8
Q ss_pred CCCCCccccchHHHHHHHHHHHHH---------HhcCCCCCchHHHHHhhh
Q 043130 53 GPRHRLVDENMIVLRKRIHEMKMI---------ERNYEPPENWMEWEKKYY 94 (157)
Q Consensus 53 ~~gg~LVDE~MiVLRkRI~Emkm~---------E~~ye~P~~WmeWEK~~y 94 (157)
+|-+..-|.||....+||+++|.. |.-.-.++....||+--.
T Consensus 12 ~~~~~~~~~~M~i~~~rLk~lR~~~glTq~eLA~~~GiS~~tis~iE~G~~ 62 (88)
T 3t76_A 12 SGRENLYFQGMRVSYNKLWKLLIDRDMKKGELREAVGVSKSTFAKLGKNEN 62 (88)
T ss_dssp --CCCCSCCCEEEECHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCC
T ss_pred CCccchhhccccHHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHcCCC
Confidence 455799999999999999999853 333455667777777543
No 8
>3nku_A DRRA, SIDM; posttranslational modification, ampylation, adenylylation, R RAB1, vesicular transport, protein transport; HET: MSE PGE; 2.10A {Legionella pneumophila subsp}
Probab=43.55 E-value=15 Score=29.61 Aligned_cols=40 Identities=35% Similarity=0.492 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHhcCCCCCchHHHHHhhhccchhHHHHHHHHH
Q 043130 64 IVLRKRIHEMKMIERNYEPPENWMEWEKKYYTGYDSYICEAMGVL 108 (157)
Q Consensus 64 iVLRkRI~Emkm~E~~ye~P~~WmeWEK~~y~~Y~sdVc~a~g~L 108 (157)
.-|-|-||| -|.|- -+-|.|||.-...-|..-+.+++..|
T Consensus 40 anlskiire---negne--vspwqewenglrqiykemiydafdal 79 (213)
T 3nku_A 40 ANLSKIIRE---NEGNE--VSPWQEWENGLRQIYKEMIYDAFDAL 79 (213)
T ss_dssp HHHHHHHHH---TGGGC--SCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHh---ccCCc--CCcHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444443 24443 35699999888877888777777655
No 9
>1jq0_A GP41 envelope protein; SIV, HIV-1, membrane fusion, six-helix bundle, trimer- hairpins, viral protein; 1.70A {Simian immunodeficiency virus} SCOP: h.3.2.1 PDB: 1jpx_A
Probab=43.44 E-value=18 Score=25.61 Aligned_cols=26 Identities=23% Similarity=0.461 Sum_probs=18.3
Q ss_pred CCchHHHHHhhhccchhHHHHHHHHHH
Q 043130 83 PENWMEWEKKYYTGYDSYICEAMGVLQ 109 (157)
Q Consensus 83 P~~WmeWEK~~y~~Y~sdVc~a~g~LQ 109 (157)
--.|++|||+- .+|...+..++.--|
T Consensus 44 nmTW~qWdrei-~nyt~~Iy~lle~sq 69 (84)
T 1jq0_A 44 RGGWQEWKRKV-DFLEENITALLEEAQ 69 (84)
T ss_dssp -CCHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHH-HHhHHHHHHHHHHHH
Confidence 35799999876 457777777765444
No 10
>1df4_A HIV-1 envelope glycoprotein GP41; membrane fusion, protein-detergent interaction; 1.45A {Human immunodeficiency virus 1} SCOP: h.3.2.1 PDB: 1df5_A 1szt_A 2ot5_A 1i5y_A 1qr9_A 1k34_A 1k33_A 1i5x_A 1dlb_A 1qr8_A 3g7a_A* 3vie_A 2zzo_N 1aik_N
Probab=39.11 E-value=20 Score=24.42 Aligned_cols=23 Identities=30% Similarity=0.785 Sum_probs=17.5
Q ss_pred CchHHHHHhhhccchhHHHHHHHH
Q 043130 84 ENWMEWEKKYYTGYDSYICEAMGV 107 (157)
Q Consensus 84 ~~WmeWEK~~y~~Y~sdVc~a~g~ 107 (157)
-.|++|||+- .+|...+..++.-
T Consensus 39 mTW~qwdkei-~nyt~~Iy~lle~ 61 (68)
T 1df4_A 39 GGWMEWDREI-NNYTSLIHSLIEE 61 (68)
T ss_dssp CCCHHHHHHH-HHHHHHHHHHHHH
T ss_pred CCHHHHHHHH-HHhhhHHHHHHHH
Confidence 6899999876 4588777776543
No 11
>2x7r_B Transmembrane protein GP41; envelope glycoprotein, membrane anchored fusion protein, viral protein; 2.00A {Human immunodeficiency virus type 1LW12}
Probab=36.52 E-value=32 Score=23.06 Aligned_cols=26 Identities=31% Similarity=0.541 Sum_probs=19.8
Q ss_pred chHHHHHhhhccchhHHHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQAQ 111 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ~~ 111 (157)
.||+|||+- .+|...+..++.--|.+
T Consensus 7 TW~qWekeI-~nyt~~Iy~LLe~sq~q 32 (63)
T 2x7r_B 7 DKMEWDREI-NNYTSLIHSLIEESQNQ 32 (63)
T ss_dssp HHHHHHHHH-HHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHH-HHhhHHHHHHHHHHHhh
Confidence 599999876 45888888887766643
No 12
>3p30_A HIV-1 GP41; HIV, GP41, cluster 2, 6-helix bundle, immune system; 3.30A {Human immunodeficiency virus 1}
Probab=34.06 E-value=28 Score=25.15 Aligned_cols=25 Identities=28% Similarity=0.720 Sum_probs=16.6
Q ss_pred CchHHHHHhhhccchhHHHHHHHHHH
Q 043130 84 ENWMEWEKKYYTGYDSYICEAMGVLQ 109 (157)
Q Consensus 84 ~~WmeWEK~~y~~Y~sdVc~a~g~LQ 109 (157)
-.||+|||+- .+|-+.+..++.--|
T Consensus 53 mTW~qWekeI-~nyt~~Iy~lLe~sq 77 (96)
T 3p30_A 53 GGWLQWDKEI-SNYTHIIYELIEESQ 77 (96)
T ss_dssp --CHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 6799999987 447777776665443
No 13
>1v7m_V Thrombopoietin; FAB fragment, complex (cytokine/antibody), immune system/cytokine complex; 2.51A {Homo sapiens} SCOP: a.26.1.2 PDB: 1v7n_V
Probab=31.38 E-value=76 Score=25.23 Aligned_cols=49 Identities=18% Similarity=0.234 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHhcC----------------CCCCchHHHHHhhhccchhHHHHHHHHHHHHHh
Q 043130 65 VLRKRIHEMKMIERNY----------------EPPENWMEWEKKYYTGYDSYICEAMGVLQAQLM 113 (157)
Q Consensus 65 VLRkRI~Emkm~E~~y----------------e~P~~WmeWEK~~y~~Y~sdVc~a~g~LQ~~LM 113 (157)
||-|=|+|.|.+|..- ..--+.-+|||+--..-..+|-..+.+||--.+
T Consensus 11 vL~~~I~EA~dae~~~~~C~~~c~Ls~~V~vP~t~vn~~~Wk~~~~~~kA~EV~~gL~LL~eav~ 75 (163)
T 1v7m_V 11 VLSKLLRDSHVLHSRLSQCPEVHPLPTPVLLPAVDFSLGEWKTQMEETKAQDILGAVTLLLEGVM 75 (163)
T ss_dssp HHHHHHHHHHHHHHGGGSSSSCCCCSSCEEEECCCCCCHHHHHSCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCCceecCceeeeHHHHHhccHHHHHHHHHHHHHHHHHHHH
Confidence 7889999999998432 223478999999888888999999999887776
No 14
>1env_A HIV-1 envelope protein chimera consisting of A FR GCN4 zipper cloned N-terminal TO...; viral fusion, coat protein, viral protein; 2.60A {Saccharomyces cerevisiae} SCOP: h.3.2.1 PDB: 1fav_A*
Probab=29.41 E-value=36 Score=25.92 Aligned_cols=27 Identities=30% Similarity=0.649 Sum_probs=17.8
Q ss_pred CCchHHHHHhhhccchhHHHHHHHHHHH
Q 043130 83 PENWMEWEKKYYTGYDSYICEAMGVLQA 110 (157)
Q Consensus 83 P~~WmeWEK~~y~~Y~sdVc~a~g~LQ~ 110 (157)
--.|++|||+- .+|...+..++.--|.
T Consensus 83 NmTW~qWdreI-~nyt~~Iy~LLeeSQ~ 109 (123)
T 1env_A 83 NMTWMEWDREI-NNYTSLIHSLIEESQN 109 (123)
T ss_dssp ---CHHHHHHH-HHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHH-HHhhHHHHHHHHHHHh
Confidence 35799999876 5588888777665443
No 15
>1qbz_A Protein (SIV GP41 ectodomain); HIV, membrane fusion, peptide inhibitor, coiled coil, SIV envelope glycoprotein GP41; 1.47A {Simian immunodeficiency virus} SCOP: h.3.2.1 PDB: 1qce_A 2ezo_A 2ezp_A 2ezq_A 2ezr_A 2ezs_A 2siv_B 2siv_A
Probab=28.88 E-value=39 Score=25.55 Aligned_cols=25 Identities=28% Similarity=0.525 Sum_probs=18.5
Q ss_pred chHHHHHhhhccchhHHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQA 110 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ~ 110 (157)
.||+|||+- .+|...+..++.--|.
T Consensus 85 TW~qWdkeI-~nyt~~Iy~lleesq~ 109 (123)
T 1qbz_A 85 TWQEWERKV-DFLEENITALLEEAQI 109 (123)
T ss_dssp HHHHHHHHH-HHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHH-HhhhhHHHHHHHHHHh
Confidence 799999876 5588888877665443
No 16
>2kix_A BM2 protein; channel, transport protein; NMR {Influenza b virus}
Probab=25.76 E-value=19 Score=21.84 Aligned_cols=15 Identities=13% Similarity=0.498 Sum_probs=7.2
Q ss_pred HHHHHHHHHhhcccc
Q 043130 142 LMELTNGILAGIQHV 156 (157)
Q Consensus 142 l~~~a~~~ls~lh~~ 156 (157)
.+.+..-+++++|++
T Consensus 7 ilsi~sfilsalhf~ 21 (33)
T 2kix_A 7 ILSISSFILSALHFI 21 (33)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444455555544
No 17
>3nr1_A HD domain-containing protein 3; stringent response, pyrophosphohydrolase, HD (histidine and acid) family, PPGPP hydrolase, hydrolase; 1.90A {Homo sapiens}
Probab=24.77 E-value=73 Score=24.40 Aligned_cols=49 Identities=18% Similarity=0.445 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHHHHHhcCCCCCchHHHHHhhhccchhHHHHHHHHHHHHHhhcCchHH
Q 043130 63 MIVLRKRIHEMKMIERNYEPPENWMEWEKKYYTGYDSYICEAMGVLQAQLMNTRPSFA 120 (157)
Q Consensus 63 MiVLRkRI~Emkm~E~~ye~P~~WmeWEK~~y~~Y~sdVc~a~g~LQ~~LMntRP~vA 120 (157)
+|.|=-|+|-||.... .||.+|..-..+.|-..-..|++. |-++.|.|.
T Consensus 116 lIKLADRl~NmR~l~~--~~~~~~~~~r~~~Y~~~~~~v~~~-------l~~~~~~l~ 164 (178)
T 3nr1_A 116 LVKLADKLYNLRDLNR--CTPEGWSEHRVQEYFEWAAQVVKG-------LQGTNRQLE 164 (178)
T ss_dssp HHHHHHHHHHHHHHHH--CCCTTCCHHHHHHHHHHHHHHHHH-------HCSSCHHHH
T ss_pred HHHHHHHHHHHHHhhh--CCccccCHHHHHHHHHHHHHHHHH-------hccCCHHHH
Confidence 4667789999998876 489999644434444344455544 345666655
No 18
>3o3x_A GP41-5; helix bundle, viral protein; HET: MPD IPA; 1.45A {Artificial gene} PDB: 3o40_A* 3o42_A* 3o43_A* 4dzu_A 4dzv_A* 3ma9_A 3mac_A 1f23_A 2kp8_A* 3vtp_D 1aik_C 2zzo_C 3f4y_A 3f50_A* 3o3z_A* 3aha_A 2z2t_A 3aha_B
Probab=24.11 E-value=50 Score=26.73 Aligned_cols=24 Identities=33% Similarity=0.772 Sum_probs=17.3
Q ss_pred chHHHHHhhhccchhHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQ 109 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ 109 (157)
.||+|||+- .+|.+.+..++.--|
T Consensus 42 TW~qWekeI-~nyT~~Iy~LLeesQ 65 (198)
T 3o3x_A 42 GWMEWDREI-NNYTSLIHSLIEESQ 65 (198)
T ss_dssp THHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred cHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 699999987 447777776665443
No 19
>3s8q_A R-M controller protein; protein-DNA complex, helix-turn-helix; HET: DNA; 2.10A {Enterobacter SP} SCOP: a.35.1.0 PDB: 3clc_A* 3ufd_A*
Probab=23.51 E-value=69 Score=19.83 Aligned_cols=37 Identities=5% Similarity=-0.029 Sum_probs=21.7
Q ss_pred CCccccchHHHHHHHHHHHHH---------HhcCCCCCchHHHHHh
Q 043130 56 HRLVDENMIVLRKRIHEMKMI---------ERNYEPPENWMEWEKK 92 (157)
Q Consensus 56 g~LVDE~MiVLRkRI~Emkm~---------E~~ye~P~~WmeWEK~ 92 (157)
|.+-++-+..+-.||+++|.. +...-.++....||+-
T Consensus 2 ~~m~~~~~~~~g~~lk~~R~~~glsq~~lA~~~gis~~~i~~~e~g 47 (82)
T 3s8q_A 2 SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRTYISGIERN 47 (82)
T ss_dssp ---CCHHHHHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTT
T ss_pred CchhHHHHHHHHHHHHHHHHHcCCCHHHHHHHhCcCHHHHHHHHCC
Confidence 455566667889999998853 3333445555555554
No 20
>1p5s_A RAS GTPase-activating-like protein RNG2; alpha-helical bundle, cytokine; 2.22A {Schizosaccharomyces pombe} SCOP: a.40.1.1
Probab=23.27 E-value=36 Score=26.89 Aligned_cols=60 Identities=17% Similarity=0.149 Sum_probs=19.8
Q ss_pred CCCCCccccc--hHHHHHHHHHHHHHHhcCCCCCchHHHHHhhhccch--hHHHHHHHHHHHHHhhc
Q 043130 53 GPRHRLVDEN--MIVLRKRIHEMKMIERNYEPPENWMEWEKKYYTGYD--SYICEAMGVLQAQLMNT 115 (157)
Q Consensus 53 ~~gg~LVDE~--MiVLRkRI~Emkm~E~~ye~P~~WmeWEK~~y~~Y~--sdVc~a~g~LQ~~LMnt 115 (157)
|+||-+.|-+ +..||....- .+.+.. -.+.|||++++.-..|+ ...-++..|+...|-..
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~-~~~~~~d~~rk~~~~ye~l~~~~e~~~WIe~~l~~~ 71 (203)
T 1p5s_A 8 GGGGILMDVNVGLSRLQSQAGA--PVGTKG-SNTRLAAKQRETLQAYDYLCRVDEAKKWIEECLGTD 71 (203)
T ss_dssp ----------------------------------------CHHHHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred CCCceeeechhhhhhcccCCCC--CCCCCC-cccchHHHHHHHHhhhhHHHHHHHHHHHHHHHhCCC
Confidence 4566666643 3444444333 112211 34579999988887787 46788999999987544
No 21
>3o3x_A GP41-5; helix bundle, viral protein; HET: MPD IPA; 1.45A {Artificial gene} PDB: 3o40_A* 3o42_A* 3o43_A* 4dzu_A 4dzv_A* 3ma9_A 3mac_A 1f23_A 2kp8_A* 3vtp_D 1aik_C 2zzo_C 3f4y_A 3f50_A* 3o3z_A* 3aha_A 2z2t_A 3aha_B
Probab=21.41 E-value=61 Score=26.22 Aligned_cols=24 Identities=33% Similarity=0.772 Sum_probs=17.3
Q ss_pred chHHHHHhhhccchhHHHHHHHHHH
Q 043130 85 NWMEWEKKYYTGYDSYICEAMGVLQ 109 (157)
Q Consensus 85 ~WmeWEK~~y~~Y~sdVc~a~g~LQ 109 (157)
.||+|||+- .+|-+.+..++.--|
T Consensus 123 TWmqWekeI-~nyT~~Iy~LLeesQ 146 (198)
T 3o3x_A 123 GWMEWDREI-NNYTSLIHSLIEESQ 146 (198)
T ss_dssp GHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred cHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 799999987 447777776665443
No 22
>1y9j_A SEC1 family domain containing protein 1; membrane traffic, SLY1, SM proteins, snares, protein protein transport; NMR {Rattus norvegicus}
Probab=21.35 E-value=49 Score=25.36 Aligned_cols=28 Identities=29% Similarity=0.358 Sum_probs=9.9
Q ss_pred CCCCCccccchH-HHHHHHHHH--HHHHhcC
Q 043130 53 GPRHRLVDENMI-VLRKRIHEM--KMIERNY 80 (157)
Q Consensus 53 ~~gg~LVDE~Mi-VLRkRI~Em--km~E~~y 80 (157)
||||-++--.|. -||.+-++. +|.+.|.
T Consensus 8 ~~~~~~~~~~m~~sLr~~qr~~l~~mL~~~~ 38 (159)
T 1y9j_A 8 GGGGILVGSKMAASIRERQTVALKRMLNFNV 38 (159)
T ss_dssp ------------CHHHHHHHHHHHHHTTCCC
T ss_pred CCchhhhHHHhHHHHHHHHHHHHHHHHhccC
Confidence 567789999996 777776652 5666554
No 23
>1gp8_A Protein (scaffolding protein); coat protein-binding domain, helix- loop-helix motif, viral protein; NMR {Enterobacteria phage P22} SCOP: j.58.1.1 PDB: 2gp8_A
Probab=20.96 E-value=42 Score=21.25 Aligned_cols=29 Identities=21% Similarity=0.115 Sum_probs=24.6
Q ss_pred HHHHhhhccchhHHHHHHHHHHHHHhhcC
Q 043130 88 EWEKKYYTGYDSYICEAMGVLQAQLMNTR 116 (157)
Q Consensus 88 eWEK~~y~~Y~sdVc~a~g~LQ~~LMntR 116 (157)
.-|++-|.+|..+..+-+-.|..+|-+.|
T Consensus 12 aiEQqiyvA~seGd~etv~~Le~QL~~lR 40 (40)
T 1gp8_A 12 AIRKQMDAAASKGDVETYRKLKAKLKGIR 40 (40)
T ss_dssp HHHHHHHHHHTTSCHHHHHHHHHHHTTCC
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Confidence 45889999999999999999999987655
Done!