Query 004450
Match_columns 753
No_of_seqs 388 out of 1262
Neff 8.1
Searched_HMMs 29240
Date Tue Mar 26 01:34:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004450.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/004450hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ayd_A WRKY transcription fact 92.5 0.62 2.1E-05 37.4 8.3 29 128-156 44-73 (76)
2 1wj2_A Probable WRKY transcrip 90.2 0.62 2.1E-05 37.6 6.1 29 128-156 47-76 (78)
3 2rpr_A Flywch-type zinc finger 89.0 0.44 1.5E-05 39.6 4.8 23 128-156 51-73 (87)
4 3kks_A Integrase, IN; beta-str 67.8 63 0.0022 28.3 14.3 67 276-352 2-68 (152)
5 3hph_A Integrase, IN; protein- 50.0 31 0.0011 33.0 7.1 66 277-352 61-126 (219)
6 3j20_Q 30S ribosomal protein S 48.9 5 0.00017 36.7 0.9 77 173-249 31-149 (158)
7 1c0m_A Protein (integrase); HI 47.3 46 0.0016 32.4 8.0 71 276-351 10-80 (238)
8 3ghg_A Fibrinogen alpha chain; 46.9 29 0.00098 37.8 6.5 87 632-734 61-148 (562)
9 1cxq_A Avian sarcoma virus int 45.6 65 0.0022 28.9 8.3 70 277-351 12-81 (162)
10 1p9i_A Cortexillin I/GCN4 hybr 43.7 27 0.00093 21.5 3.3 29 724-752 2-30 (31)
11 3l3u_A POL polyprotein; DNA in 41.9 48 0.0016 29.8 6.7 61 277-347 10-70 (163)
12 2lju_A Putative oxidoreductase 34.8 29 0.001 29.7 3.4 29 56-88 60-88 (108)
13 1bco_A MUA domain II, bacterio 31.1 81 0.0028 32.4 7.0 69 276-347 16-92 (327)
14 2x78_A Integrase; viral protei 28.5 1.1E+02 0.0037 28.4 6.9 69 277-351 14-83 (200)
15 2jya_A AGR_C_3324P, uncharacte 27.9 19 0.00064 30.8 1.1 28 57-88 53-80 (106)
16 3u5c_N S27A, YS15, 40S ribosom 27.5 20 0.00067 32.5 1.2 77 173-249 31-142 (151)
17 3hot_A Transposable element ma 26.8 1.1E+02 0.0038 31.2 7.3 56 289-347 186-252 (345)
18 1zxa_A CGMP-dependent protein 25.3 72 0.0024 24.8 3.8 31 699-729 21-51 (67)
19 2xzm_O RPS13E; ribosome, trans 22.0 30 0.001 31.3 1.3 77 173-249 33-144 (153)
20 2l69_A Rossmann 2X3 fold prote 21.7 61 0.0021 26.5 2.9 29 61-89 7-35 (134)
21 1c6v_A Protein (SIV integrase) 20.0 1.5E+02 0.0052 26.0 5.9 61 277-347 10-70 (164)
No 1
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=92.48 E-value=0.62 Score=37.40 Aligned_cols=29 Identities=21% Similarity=0.550 Sum_probs=25.8
Q ss_pred CCceEEEEEEeC-CCcEEEEEeeccccCCC
Q 004450 128 GCKAQMTVKKQG-SGKWAVSKLIKEHNHEL 156 (753)
Q Consensus 128 gCpa~i~v~~~~-~~~W~V~~~~~~HNH~l 156 (753)
||||+=.|.+.. +....++.+..+|||++
T Consensus 44 gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~ 73 (76)
T 2ayd_A 44 GCPVKKHVERSSHDTKLLITTYEGKHDHDM 73 (76)
T ss_dssp TCCCEEEEEECSSSTTEEEEEEESCCSSCC
T ss_pred CCCceeeEEEECCCCCEEEEEEccCcCCCC
Confidence 999999999875 67888889999999985
No 2
>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*
Probab=90.16 E-value=0.62 Score=37.58 Aligned_cols=29 Identities=31% Similarity=0.552 Sum_probs=25.6
Q ss_pred CCceEEEEEEeC-CCcEEEEEeeccccCCC
Q 004450 128 GCKAQMTVKKQG-SGKWAVSKLIKEHNHEL 156 (753)
Q Consensus 128 gCpa~i~v~~~~-~~~W~V~~~~~~HNH~l 156 (753)
||||+=.|.+.. +..-.++.+..+|||++
T Consensus 47 gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~ 76 (78)
T 1wj2_A 47 GCGVRKHVERAATDPKAVVTTYEGKHNHDL 76 (78)
T ss_dssp SCEEEEEEEEETTTTSEEEEEEESCCSSCC
T ss_pred CCCcEeeEEEEcCCCCEEEEEEeeEcCCCC
Confidence 899999999875 77788888999999985
No 3
>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=89.02 E-value=0.44 Score=39.57 Aligned_cols=23 Identities=17% Similarity=0.651 Sum_probs=16.7
Q ss_pred CCceEEEEEEeCCCcEEEEEeeccccCCC
Q 004450 128 GCKAQMTVKKQGSGKWAVSKLIKEHNHEL 156 (753)
Q Consensus 128 gCpa~i~v~~~~~~~W~V~~~~~~HNH~l 156 (753)
+|+|++..... . |. ....||||+
T Consensus 51 kCrARi~T~~~---~--~~-~~~~HnH~p 73 (87)
T 2rpr_A 51 GCRSRAITQGH---R--IM-VMRSHCHQP 73 (87)
T ss_dssp CCCCEEEEETT---E--EE-ECSCCSSCC
T ss_pred CCCEEEEEcCC---C--EE-CCCCcCCCC
Confidence 89999987642 2 32 567899974
No 4
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=67.82 E-value=63 Score=28.30 Aligned_cols=67 Identities=9% Similarity=0.042 Sum_probs=48.7
Q ss_pred CcEEEecccccccccCCcccceEEeecCCceEEEEEEeecccchhHHHHHHHHHHHHhCCCCCceecchhhHHHHHH
Q 004450 276 GDTVTFDTTYRMNRYRIPFAPFTGLNHHGQPVLFGCALLLNESEASFIWLFEAWLAAMSGRSPNSITTDQDRIIRAA 352 (753)
Q Consensus 276 ~dvv~~D~Ty~tn~y~~pl~~~~gvn~~~~~~~~g~al~~~Et~es~~W~~~~~~~~m~~~~p~~iitD~~~~l~~A 352 (753)
++++.+|.|+..++ +.++.+|..-+.+ +++.+ .+++.+...-+|..+....| |.+|.||+.....+.
T Consensus 2 n~~w~~D~t~~~~~-----y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~f~s~ 68 (152)
T 3kks_A 2 SHLWQMDNTHWNKT-----IIWVAVETNSGLV-EAQVI-PEETALQVALCILQLIQRYT---VLHLHSDNGPCFTAH 68 (152)
T ss_dssp CCEEEEEEEEETTE-----EEEEEEETTTCCE-EEEEE-SSSCHHHHHHHHHHHHHHSC---CSEEEECSCHHHHSH
T ss_pred CcEEEEeeeeeCCE-----EEEEEEEcCCCcE-EEEEe-CCcCHHHHHHHHHHHHHHhC---CcEEecCCchHhhHH
Confidence 36788999988443 5667778777655 55554 57777777777777666665 999999998877553
No 5
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A
Probab=50.00 E-value=31 Score=32.98 Aligned_cols=66 Identities=17% Similarity=0.231 Sum_probs=45.9
Q ss_pred cEEEecccccccccCCcccceEEeecCCceEEEEEEeecccchhHHHHHHHHHHHHhCCCCCceecchhhHHHHHH
Q 004450 277 DTVTFDTTYRMNRYRIPFAPFTGLNHHGQPVLFGCALLLNESEASFIWLFEAWLAAMSGRSPNSITTDQDRIIRAA 352 (753)
Q Consensus 277 dvv~~D~Ty~tn~y~~pl~~~~gvn~~~~~~~~g~al~~~Et~es~~W~~~~~~~~m~~~~p~~iitD~~~~l~~A 352 (753)
+++.+|.|+..++ +.++.+|..-..+ +++. +.+.+.....-+|..+....| |.+|.||+.....++
T Consensus 61 ~~w~~D~t~~~~~-----y~~~~iD~~Sr~~-~~~~-~~~~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~F~s~ 126 (219)
T 3hph_A 61 DHWQVDYTHYEDK-----IILVWVETNSGLI-YAER-VKGETGQEFRVQTMKWYAMFA---PKSLQSDNGPAFVAE 126 (219)
T ss_dssp CEEEEEEEEETTE-----EEEEEEETTTCCE-EEEE-ESCCCHHHHHHHHHHHHHHHC---CCEEEECCCHHHHSH
T ss_pred ceEEEEEecCCCE-----EEEEEEeCCCCcE-EEEE-eCCCCHHHHHHHHHHHHHHhC---CcEEEeCCCchhhhH
Confidence 5677888876543 4667778777766 4444 556677776666666666655 899999998876543
No 6
>3j20_Q 30S ribosomal protein S15P/S13E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=48.85 E-value=5 Score=36.72 Aligned_cols=77 Identities=12% Similarity=0.047 Sum_probs=52.6
Q ss_pred cchhhHHHHHHhcCCCCcchhhhHhhhcCCccccccc------------------------ccccchhhhhhhhh-----
Q 004450 173 GPARSLIDTLQAAGMGPSGVMSVLIKESGGVNNVGFT------------------------KVDCQNYMSSSRQR----- 223 (753)
Q Consensus 173 ~~~k~~i~~l~~~gi~~~~I~~~l~~~~g~~~~~~~t------------------------~~Di~N~~~~~r~~----- 223 (753)
++..++|..|...|++|++|--+|++++|-..--.+| +.|++++..++..-
T Consensus 31 eev~~~i~klakkG~~pSqIG~~LRD~~gip~Vk~vt~~~~~~~G~ki~~iLk~~gl~p~iPEDL~~Lt~RI~~Lt~HLk 110 (158)
T 3j20_Q 31 EEIENLVVKLRKEGYSTAMIGTILRDQYGIPSVKLFKDPDNPNRNLTITRILEKHGLAPEIPEDLMFLIRRAVNLRKHLE 110 (158)
T ss_dssp HHHHHHHHHHHHHTCCHHHHHHHHHHTTCCSCHHHHHCSSSTTSCCCTHHHHHHHTCSCSSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCCHHHhhHHHhccCCCCCeeeccccccccCcCcHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 4456778889999999999999999999854222223 35666665554321
Q ss_pred ccC-------------cChHHHHHHHHHhhhcCCccEEE
Q 004450 224 TLG-------------SGGQVVIDNLKQMQAEDPSFFCA 249 (753)
Q Consensus 224 ~~~-------------gd~~~ll~~l~~~~~~np~f~y~ 249 (753)
... +....|++|+++...-.|+|.|.
T Consensus 111 ~hkKD~hSrRgL~~lv~kRrrLL~YLk~kd~lp~~w~Y~ 149 (158)
T 3j20_Q 111 QHPKDLHSMRGLQLIESKIRRLVKYYKRKGKLPKNWRYD 149 (158)
T ss_dssp HCCCCSHHHHHHHHHHHHHHHHHHHHHHHTSSCTTCCCC
T ss_pred hcCCchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCceEC
Confidence 111 23578899998877777888775
No 7
>1c0m_A Protein (integrase); HIV, X-RAY crystallography, protein structure, transferase; 2.53A {Rous sarcoma virus} SCOP: b.34.7.1 c.55.3.2 PDB: 1c1a_A
Probab=47.28 E-value=46 Score=32.42 Aligned_cols=71 Identities=10% Similarity=-0.001 Sum_probs=49.9
Q ss_pred CcEEEecccccccccCCcccceEEeecCCceEEEEEEeecccchhHHHHHHHHHHHHhCCCCCceecchhhHHHHH
Q 004450 276 GDTVTFDTTYRMNRYRIPFAPFTGLNHHGQPVLFGCALLLNESEASFIWLFEAWLAAMSGRSPNSITTDQDRIIRA 351 (753)
Q Consensus 276 ~dvv~~D~Ty~tn~y~~pl~~~~gvn~~~~~~~~g~al~~~Et~es~~W~~~~~~~~m~~~~p~~iitD~~~~l~~ 351 (753)
.+++.+|.|+..... +-.+.++.+|..-.. ++|+.+- +++.+...-+|.......+ .|.+|.||+.....+
T Consensus 10 ~~~w~~D~~~~~~~~-g~~yl~~~iD~~Sr~-i~~~~~~-~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s 80 (238)
T 1c0m_A 10 LQIWQTDFTLEPRMA-PRSWLAVTVDTASSA-IVVTQHG-RVTSVAVQHHWATAIAVLG--RPKAIKTDNGSCFTS 80 (238)
T ss_dssp TSEEEEEEEECGGGC-SSCEEEEEEETTTCC-EEEEEES-SCCHHHHHHHHHHHHHHHC--CCSEEEECSCHHHHS
T ss_pred CCEEEEeeccccccC-CCEEEEEEEECCCCC-EEEEEcc-CCCHHHHHHHHHHHHHHhC--CCcEEEECCCCcccc
Confidence 368899999865433 335666777776654 4566665 8888887777777766665 488999999887644
No 8
>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*
Probab=46.92 E-value=29 Score=37.82 Aligned_cols=87 Identities=18% Similarity=0.249 Sum_probs=61.2
Q ss_pred ChHHHHHHHHHHHHHHHHHhccCHHH-HHHHHHHHHHHHHHHHHHHhcCCCcccCCCCccCccCCCCCCchhhhHHHHHH
Q 004450 632 SSAARYDNLCREVIKYVEEGAESAHI-YNMAMDVLREAAKKVAAAKKYGPGVTQNSLFSGCQQHHSCSVDQDKKIQELTV 710 (753)
Q Consensus 632 s~~~Ry~~L~~~~~~~~~~~~~s~e~-~~~a~~~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~ 710 (753)
+.+.|.+.|+++.-++ .+-..+.+. |+..|+.|++-+.......+....++ +|..++|+.|..
T Consensus 61 DltkrINELKnqLEdl-sKnsKdseqy~k~~~E~Lr~rq~q~~dNdNtynE~S---------------~ELRRrIqyLKe 124 (562)
T 3ghg_A 61 DFTNRINKLKNSLFEY-QKNNKDSHSLTTNIMEILRGDFSSANNRDNTYNRVS---------------EDLRSRIEVLKR 124 (562)
T ss_dssp HHHHHHHHHHHHHTHH-HHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHTT---------------HHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHH-HhhchhHHHHHHHHHHHHHHHHHhhhccchhHHHHH---------------HHHHHHHHHHHH
Confidence 3467999999999998 555555555 45566666655555554444322222 678999999999
Q ss_pred HHHhhhhchHHHHHHHHHHHHhHH
Q 004450 711 ELENASQRCEAYRTKLLAVLKDME 734 (753)
Q Consensus 711 ~l~~~~~~~~~~~~~l~~~~~~~~ 734 (753)
++.++-++.++.|.+|...+.+|-
T Consensus 125 kVdnQlsnIrvLQsnLedq~~kIQ 148 (562)
T 3ghg_A 125 KVIEKVQHIQLLQKNVRAQLVDMK 148 (562)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999888888887777666653
No 9
>1cxq_A Avian sarcoma virus integrase; mixed beta-sheet surrounded by alpha-helices, transferase; HET: EPE; 1.02A {Avian sarcoma virus} SCOP: c.55.3.2 PDB: 1cxu_A* 1czb_A* 1cz9_A* 1asu_A* 1asw_A* 1asv_A 1a5v_A* 1a5w_A* 1a5x_A* 1vsf_A* 1vse_A* 3o4n_A* 1vsm_A 3o4q_A* 1vsd_A* 1vsh_A* 1vsi_A* 1vsj_A* 1vsk_A 1vsl_A
Probab=45.61 E-value=65 Score=28.92 Aligned_cols=70 Identities=10% Similarity=0.010 Sum_probs=47.7
Q ss_pred cEEEecccccccccCCcccceEEeecCCceEEEEEEeecccchhHHHHHHHHHHHHhCCCCCceecchhhHHHHH
Q 004450 277 DTVTFDTTYRMNRYRIPFAPFTGLNHHGQPVLFGCALLLNESEASFIWLFEAWLAAMSGRSPNSITTDQDRIIRA 351 (753)
Q Consensus 277 dvv~~D~Ty~tn~y~~pl~~~~gvn~~~~~~~~g~al~~~Et~es~~W~~~~~~~~m~~~~p~~iitD~~~~l~~ 351 (753)
+++.+|.|+....- +-.+.++.+|..-..+ +|+.+- +.+.+...-+|+.+....+ .|.+|.||+.....+
T Consensus 12 ~~~~~D~~~~~~~~-g~~yl~~~iD~~Sr~i-~~~~~~-~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s 81 (162)
T 1cxq_A 12 QIWQTDFTLEPRMA-PRSWLAVTVDTASSAI-VVTQHG-RVTSVAAQHHWATAIAVLG--RPKAIKTDNGSCFTS 81 (162)
T ss_dssp CEEEEEEEECGGGT-TSCEEEEEEETTTCCE-EEEEES-SCCHHHHHHHHHHHHHHHC--CCSEEECCSCHHHHS
T ss_pred CEEEeeeeecccCC-CCEEEEEEEEcCCCeE-EEEECC-CccHHHHHHHHHHHHHHHC--CCeEEEeCCchhhhh
Confidence 67888988865432 3355667788776544 556655 6777776666666655554 478999999887654
No 10
>1p9i_A Cortexillin I/GCN4 hybrid peptide; coiled-coil, unknown function; 1.17A {Synthetic} SCOP: h.1.10.1
Probab=43.75 E-value=27 Score=21.55 Aligned_cols=29 Identities=28% Similarity=0.400 Sum_probs=23.7
Q ss_pred HHHHHHHHhHHHHHhhhhHHHHHHHhhcc
Q 004450 724 TKLLAVLKDMEEEKTKMLVKVENVRLDLK 752 (753)
Q Consensus 724 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 752 (753)
.||..+|..+|-.+.+|-.||+.+.-.|-
T Consensus 2 dqlnallasleaenkqlkakveellakvg 30 (31)
T 1p9i_A 2 DQLNALLASLEAENKQLKAKVEELLAKVG 30 (31)
T ss_dssp -CHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46788888999999999999998876653
No 11
>3l3u_A POL polyprotein; DNA integration, AIDS, integrase, endonuclease, polynucleotidyl transferase, DNA binding, viral protein; 1.40A {Human immunodeficiency virus 1} PDB: 3ao1_A 3l3v_A* 3ovn_A* 3ao2_A* 3ao3_A* 3ao4_A* 3ao5_A* 2itg_A 1biz_A 1biu_A 1b9d_A 4dmn_A* 2b4j_A 1itg_A 1b92_A 1bl3_A 1bi4_A 1bis_A 1b9f_A 1bi4_B ...
Probab=41.94 E-value=48 Score=29.79 Aligned_cols=61 Identities=8% Similarity=0.060 Sum_probs=43.3
Q ss_pred cEEEecccccccccCCcccceEEeecCCceEEEEEEeecccchhHHHHHHHHHHHHhCCCCCceecchhhH
Q 004450 277 DTVTFDTTYRMNRYRIPFAPFTGLNHHGQPVLFGCALLLNESEASFIWLFEAWLAAMSGRSPNSITTDQDR 347 (753)
Q Consensus 277 dvv~~D~Ty~tn~y~~pl~~~~gvn~~~~~~~~g~al~~~Et~es~~W~~~~~~~~m~~~~p~~iitD~~~ 347 (753)
+++.+|.|+..++ +.++.+|.....+ +++.+ .+++.+...-++..+...++ +.+|.||+..
T Consensus 10 ~~w~~D~t~~~g~-----y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~~---~~~i~sD~G~ 70 (163)
T 3l3u_A 10 GIWQLDCTHLEGK-----VILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRWP---VKTVHTDNGS 70 (163)
T ss_dssp TEEEEEEEEETTE-----EEEEEEETTTCCE-EEEEE-SSCCHHHHHHHHHHHHHHSC---CCEEEECCCG
T ss_pred CEEEEEecccCCc-----EEEEEEecCCCcE-EEEEe-CCCcHHHHHHHHHHHHHHcC---CcEEeecChH
Confidence 6888999997653 4667788877655 55555 56677777777766665554 4799999955
No 12
>2lju_A Putative oxidoreductase; structural genomics, seattle structural GENO center for infectious disease, ssgcid; NMR {Ehrlichia chaffeensis}
Probab=34.80 E-value=29 Score=29.71 Aligned_cols=29 Identities=17% Similarity=0.067 Sum_probs=23.5
Q ss_pred CCCCCccCCHHHHHHHHHHHhhhcCcEEEEeee
Q 004450 56 PFEGMEFDSEQAARIFYNSYARRIGFSTRVSVY 88 (753)
Q Consensus 56 P~~Gm~F~S~eea~~fy~~YA~~~GF~vr~~~s 88 (753)
-.+.+.|+|.|+|.. ||.++|....+..-
T Consensus 60 ~qv~L~F~skE~Aia----yAek~G~~y~V~ep 88 (108)
T 2lju_A 60 QQVCLSFTTRELAIA----YAVAHKIDYTVLQD 88 (108)
T ss_dssp CCSCEEESSHHHHHH----HHHHTTCEEEEECS
T ss_pred ccceEecCCHHHHHH----HHHHcCCEEEEecC
Confidence 446899999999974 79999988877643
No 13
>1bco_A MUA domain II, bacteriophage MU transposase; polynucleotidyl transferase, DNA binding, endonuclease, integrase; 2.40A {Enterobacteria phage MU} SCOP: b.48.1.1 c.55.3.3 PDB: 1bcm_A
Probab=31.12 E-value=81 Score=32.39 Aligned_cols=69 Identities=14% Similarity=0.023 Sum_probs=47.8
Q ss_pred CcEEEecccccccc----cCC--cccceEEeecCCceEEEEEEeecccchhHHHHHHHHHHHHhCCCCCc--eecchhhH
Q 004450 276 GDTVTFDTTYRMNR----YRI--PFAPFTGLNHHGQPVLFGCALLLNESEASFIWLFEAWLAAMSGRSPN--SITTDQDR 347 (753)
Q Consensus 276 ~dvv~~D~Ty~tn~----y~~--pl~~~~gvn~~~~~~~~g~al~~~Et~es~~W~~~~~~~~m~~~~p~--~iitD~~~ 347 (753)
++++.+|.|+..-. -+. .....+-+|..-. .++|+.+...++.++..-+|.......+ .|. +|.+|+-.
T Consensus 16 ~~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~SR-~ivg~~~~~~~~~~~v~~aL~~a~~~~G--~P~~~~i~sDnG~ 92 (327)
T 1bco_A 16 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKTR-KILGWRCDVSENIDSIRLSFMDVVTRYG--IPEDFHITIDNTR 92 (327)
T ss_dssp TTEEEEEEEECSBCEECTTSCEECCEEEEEEETTTC-CEEEEEEESSCCHHHHHHHHHHHHHHHC--EESSCEEECCCTT
T ss_pred CcEEEecCCEEEEEEECCCCccceeEEEEEEECCCC-cEEEEEEECCCCHHHHHHHHHHHHHhcC--CCCCcEEEeeCch
Confidence 47889998875432 121 2345556676655 4578999889999888887777666554 566 99999865
No 14
>2x78_A Integrase; viral protein, DNA-directed DNA polyme nucleotidyltransferase, DNA integration, aspartyl protease, recombination, transferase; 2.00A {Human spumaretrovirus} PDB: 2x6n_A 2x6s_A 2x74_A 3dlr_A
Probab=28.45 E-value=1.1e+02 Score=28.40 Aligned_cols=69 Identities=12% Similarity=-0.028 Sum_probs=44.2
Q ss_pred cEEEecc-cccccccCCcccceEEeecCCceEEEEEEeecccchhHHHHHHHHHHHHhCCCCCceecchhhHHHHH
Q 004450 277 DTVTFDT-TYRMNRYRIPFAPFTGLNHHGQPVLFGCALLLNESEASFIWLFEAWLAAMSGRSPNSITTDQDRIIRA 351 (753)
Q Consensus 277 dvv~~D~-Ty~tn~y~~pl~~~~gvn~~~~~~~~g~al~~~Et~es~~W~~~~~~~~m~~~~p~~iitD~~~~l~~ 351 (753)
+++.+|. ++.... ++..+.++.+|..-..+ +++.+ .+.+.+...-+|+ .+..-..|.+|.||+.....+
T Consensus 14 ~~~~~D~~~~~~~~-~g~~y~~~~iD~~Sr~~-~~~~~-~~~~~~~~~~~l~---~~~~~g~p~~i~sDnG~~f~s 83 (200)
T 2x78_A 14 DKFFIDYIGPLPPS-QGYLYVLVVVDGMTGFT-WLYPT-KAPSTSATVKSLN---VLTSIAIPRVIHSDQGAAFTS 83 (200)
T ss_dssp SEEEEEEECCCSCB-TTBCEEEEEEETTTCCE-EEEEE-SSSCHHHHHHHHH---HHTTTCCCSEEEECSCHHHHS
T ss_pred cEEEEEEeCCCccC-CCCeEEEEEEeCCCCcE-EEEEC-CCCCHHHHHHHHH---HHHHhCCCcEEEecCCcceeh
Confidence 6788886 554433 44566777788776554 45665 6666666544443 344335789999999887644
No 15
>2jya_A AGR_C_3324P, uncharacterized protein ATU1810; protein with unknown function ATU1810, ontario centre for ST proteomics, OCSP; NMR {Agrobacterium tumefaciens str}
Probab=27.95 E-value=19 Score=30.79 Aligned_cols=28 Identities=29% Similarity=0.462 Sum_probs=22.7
Q ss_pred CCCCccCCHHHHHHHHHHHhhhcCcEEEEeee
Q 004450 57 FEGMEFDSEQAARIFYNSYARRIGFSTRVSVY 88 (753)
Q Consensus 57 ~~Gm~F~S~eea~~fy~~YA~~~GF~vr~~~s 88 (753)
.+.+.|+|.|+|.. ||.++|....+...
T Consensus 53 qv~L~F~skE~Aia----yAek~G~~y~V~ep 80 (106)
T 2jya_A 53 QVKLTFETQEQAEA----YAQRKGIEYRVILP 80 (106)
T ss_dssp EEEEEESSHHHHHH----HHHHHTCEEEECCC
T ss_pred cceEecCCHHHHHH----HHHHcCCEEEEeCC
Confidence 45789999999974 79999988877643
No 16
>3u5c_N S27A, YS15, 40S ribosomal protein S13; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_O 3o30_G 3o2z_G 3u5g_N 3iz6_O 3jyv_O* 1ysh_E 1s1h_O
Probab=27.46 E-value=20 Score=32.46 Aligned_cols=77 Identities=13% Similarity=0.088 Sum_probs=52.8
Q ss_pred cchhhHHHHHHhcCCCCcchhhhHhhhcCCccccc-----------------ccccccchhhhhhh--hhcc--------
Q 004450 173 GPARSLIDTLQAAGMGPSGVMSVLIKESGGVNNVG-----------------FTKVDCQNYMSSSR--QRTL-------- 225 (753)
Q Consensus 173 ~~~k~~i~~l~~~gi~~~~I~~~l~~~~g~~~~~~-----------------~t~~Di~N~~~~~r--~~~~-------- 225 (753)
++..++|..|...|++|++|--+|++++|-..--. =.+.|++|++.++- ++.+
T Consensus 31 eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vtG~kI~rILk~~glapeiPEDL~~LikKAv~lrkHLe~n~kD~~ 110 (151)
T 3u5c_N 31 ESVIEQIVKYARKGLTPSQIGVLLRDAHGVTQARVITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLERNRKDKD 110 (151)
T ss_dssp HHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSCHHHHSSSCHHHHHHHTTCCCSSCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred HHHHHHHHHHHHCCCCHHHhhhHHhccCCCCCeeeecccHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHHccccHH
Confidence 44567788999999999999999999998542111 12467888776532 1111
Q ss_pred --------CcChHHHHHHHHHhhhcCCccEEE
Q 004450 226 --------GSGGQVVIDNLKQMQAEDPSFFCA 249 (753)
Q Consensus 226 --------~gd~~~ll~~l~~~~~~np~f~y~ 249 (753)
+.-+..|..|.+....-.|+|.|.
T Consensus 111 sK~~L~liESkI~RL~rYYk~~~~LP~~WkY~ 142 (151)
T 3u5c_N 111 AKFRLILIESRIHRLARYYRTVAVLPPNWKYE 142 (151)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTSSCTTCCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCcCCCCCcCC
Confidence 122567788888888888888775
No 17
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*
Probab=26.83 E-value=1.1e+02 Score=31.24 Aligned_cols=56 Identities=13% Similarity=0.059 Sum_probs=35.4
Q ss_pred ccCCcccceEEeecCCceEEEEEEeec---ccchhHHHHHHHHHHHHh----CC----CCCceecchhhH
Q 004450 289 RYRIPFAPFTGLNHHGQPVLFGCALLL---NESEASFIWLFEAWLAAM----SG----RSPNSITTDQDR 347 (753)
Q Consensus 289 ~y~~pl~~~~gvn~~~~~~~~g~al~~---~Et~es~~W~~~~~~~~m----~~----~~p~~iitD~~~ 347 (753)
.++.-+....+++..| ++++.++. .-+.+.|.-+|+.++..+ +. ..+.+|+.|...
T Consensus 186 ~~~~~~~v~~~~~~~g---~~~~~~~~~~~~~~~~~y~~~L~~~~~~~~~~~p~~~~~~~~~~~~~Dna~ 252 (345)
T 3hot_A 186 RFGKKTMLCVWWDQSG---VIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAP 252 (345)
T ss_dssp TTCCEEEEEEEEESSS---EEEEEEECSSCCCCHHHHHHHHHHHHHHHHHHSTTCC---CCCEEECCCCT
T ss_pred CcCCcEEEEEEEcccC---ceeeEecCCCCcccHHHHHHHHHHHHHHHHHhchhhhcCCCceEEEECCCC
Confidence 3444555556666666 56666665 567888888888776554 22 235688899754
No 18
>1zxa_A CGMP-dependent protein kinase 1, alpha isozyme; parallel coiled coil dimer, transferase; NMR {Homo sapiens}
Probab=25.33 E-value=72 Score=24.76 Aligned_cols=31 Identities=19% Similarity=0.350 Sum_probs=23.9
Q ss_pred CchhhhHHHHHHHHHhhhhchHHHHHHHHHH
Q 004450 699 VDQDKKIQELTVELENASQRCEAYRTKLLAV 729 (753)
Q Consensus 699 ~~~~~~i~~l~~~l~~~~~~~~~~~~~l~~~ 729 (753)
..||.+|++|..+|...+..-+.-|.+|.-+
T Consensus 21 ~~Kde~I~eLE~~L~~kd~eI~eLr~~LdK~ 51 (67)
T 1zxa_A 21 MLKEERIKELEKRLSEKEEEIQELKRKLHKC 51 (67)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5688888888888888888777777776543
No 19
>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_O 1ysh_E 3jyv_O* 1s1h_O
Probab=22.02 E-value=30 Score=31.34 Aligned_cols=77 Identities=16% Similarity=0.082 Sum_probs=53.1
Q ss_pred cchhhHHHHHHhcCCCCcchhhhHhhhcCCccc-----------------ccccccccchhhhhh---hhh--ccCcC--
Q 004450 173 GPARSLIDTLQAAGMGPSGVMSVLIKESGGVNN-----------------VGFTKVDCQNYMSSS---RQR--TLGSG-- 228 (753)
Q Consensus 173 ~~~k~~i~~l~~~gi~~~~I~~~l~~~~g~~~~-----------------~~~t~~Di~N~~~~~---r~~--~~~gd-- 228 (753)
++..++|..|...|++|++|--+|++++|-..- .|-.+.|++|++.++ |+. ....|
T Consensus 33 eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vtG~kI~rILk~~glapeiPEDL~~LikKAv~lRkHLe~n~kD~~ 112 (153)
T 2xzm_O 33 STVVDLSVKLAKKGLTPSQIGVILRDQHGIPQVRFLTGQKILRILKKNGCAPQLPEDLYFLIKKALSIRKHLEKNRKDKD 112 (153)
T ss_dssp HHHHHHHHHHHHTTCCHHHHHHHHHHSSCCSCHHHHHSSCHHHHHHHTTCCCSSCHHHHHHHHHHHHHHHHHHHTTTCHH
T ss_pred HHHHHHHHHHHHCCCCHHHhhhHHhhcCCCCCeeeeccchHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHcccchh
Confidence 445677888999999999999999999885421 112346888887653 211 11122
Q ss_pred -----------hHHHHHHHHHhhhcCCccEEE
Q 004450 229 -----------GQVVIDNLKQMQAEDPSFFCA 249 (753)
Q Consensus 229 -----------~~~ll~~l~~~~~~np~f~y~ 249 (753)
+..|..|-+....-.|+|.|.
T Consensus 113 sK~~L~LiESkI~RL~rYYk~~~~LP~~WkY~ 144 (153)
T 2xzm_O 113 SKYRLILVESRIHRLSRYYKLNQKLPPKWKYN 144 (153)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTSSCTTCCCS
T ss_pred hHHHHHHHHHHHHHHHHHHHhcCcCCCCCcCC
Confidence 567788888888888888774
No 20
>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}
Probab=21.69 E-value=61 Score=26.54 Aligned_cols=29 Identities=14% Similarity=0.289 Sum_probs=24.8
Q ss_pred ccCCHHHHHHHHHHHhhhcCcEEEEeeee
Q 004450 61 EFDSEQAARIFYNSYARRIGFSTRVSVYQ 89 (753)
Q Consensus 61 ~F~S~eea~~fy~~YA~~~GF~vr~~~s~ 89 (753)
.|.+-||...-+...-+++||.+|..+|.
T Consensus 7 vfstdeetlrkfkdiikkngfkvrtvrsp 35 (134)
T 2l69_A 7 VFSTDEETLRKFKDIIKKNGFKVRTVRSP 35 (134)
T ss_dssp ECCCCHHHHHHHHHHHHHTTCEEEEECSH
T ss_pred EEeCCHHHHHHHHHHHHhcCceEEEecCH
Confidence 58888888888889999999999987764
No 21
>1c6v_A Protein (SIV integrase); DNA integration, DNA binding protein; 3.00A {Simian immunodeficiency virus} SCOP: c.55.3.2
Probab=20.01 E-value=1.5e+02 Score=25.98 Aligned_cols=61 Identities=10% Similarity=0.003 Sum_probs=36.5
Q ss_pred cEEEecccccccccCCcccceEEeecCCceEEEEEEeecccchhHHHHHHHHHHHHhCCCCCceecchhhH
Q 004450 277 DTVTFDTTYRMNRYRIPFAPFTGLNHHGQPVLFGCALLLNESEASFIWLFEAWLAAMSGRSPNSITTDQDR 347 (753)
Q Consensus 277 dvv~~D~Ty~tn~y~~pl~~~~gvn~~~~~~~~g~al~~~Et~es~~W~~~~~~~~m~~~~p~~iitD~~~ 347 (753)
.++.+|.|+..+ . +.++.+|..-+. ++|+.+ .+.+.+.+.-++..+.... .|.+|.+|+..
T Consensus 10 ~~w~~D~~~~~g----~-~~l~~iD~~Sr~-~~~~~~-~~~~~~~~~~~~~~~~~~~---~~~~i~sDnG~ 70 (164)
T 1c6v_A 10 GTWQMDCTHLEG----K-IVIVAVHVASGF-IEAEVI-PQETGRQTALFLLKLAGRW---PITHLHTDNGA 70 (164)
T ss_dssp TEEEEEEEEETT----E-EEEEEECTTSCC-EEEEEC-SSCSHHHHHHHHHHHHTTS---CCCEEECCCCS
T ss_pred CEEEEeecccCC----E-EEEEEEEccCCE-EEEEEc-CCCchHHHHHHHHHHHHhc---CCCEEEeCCch
Confidence 578888888722 2 344557776654 455544 4566655554444433333 47899999854
Done!