Query 040648
Match_columns 539
No_of_seqs 232 out of 425
Neff 3.9
Searched_HMMs 29240
Date Mon Mar 25 16:51:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040648.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/040648hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1cja_A Protein (actin-fragmin 97.8 3.3E-05 1.1E-09 79.7 7.5 136 90-264 76-238 (342)
2 3akj_A CTKA; protein kinase, t 95.9 0.0023 8E-08 64.8 1.9 49 217-266 139-188 (325)
3 3tpd_A Serine/threonine-protei 86.9 0.53 1.8E-05 49.0 4.7 38 217-256 293-330 (440)
4 3ls8_A Phosphatidylinositol 3- 74.9 0.87 3E-05 50.4 1.2 41 218-264 463-503 (614)
5 2x6h_A GH13170P, VPS34, phosph 70.4 1.3 4.3E-05 49.7 1.2 41 218-264 537-577 (696)
6 3hhm_A Phosphatidylinositol-4, 69.5 1.5 5.1E-05 51.5 1.5 41 218-264 923-963 (1091)
7 2wxf_A Phosphatidylinositol-4, 62.5 2.1 7.1E-05 49.5 0.9 41 218-264 774-814 (940)
8 1e7u_A Phosphatidylinositol 3- 60.9 2.3 7.9E-05 49.2 1.0 41 218-264 790-830 (961)
9 2y3a_A Phosphatidylinositol-4, 60.3 2.7 9.1E-05 49.4 1.4 41 218-264 926-966 (1092)
10 3szt_A QCSR, quorum-sensing co 45.8 24 0.00081 33.2 5.1 99 255-368 109-219 (237)
11 1m3w_A H10H24; four-helix bund 39.9 22 0.00075 24.7 2.8 23 504-526 5-30 (32)
12 1b0n_B Protein (SINI protein); 36.8 24 0.00081 27.8 2.9 24 323-346 17-40 (57)
13 2xzm_O RPS13E; ribosome, trans 34.2 61 0.0021 30.2 5.7 37 329-366 43-100 (153)
14 3hug_A RNA polymerase sigma fa 33.5 35 0.0012 27.3 3.6 56 298-367 26-81 (92)
15 2o8x_A Probable RNA polymerase 28.4 1.5E+02 0.0052 21.6 6.2 57 298-368 4-60 (70)
16 1npb_A Fosfomycin-resistance p 27.9 29 0.001 28.6 2.3 48 78-125 81-128 (141)
17 3qp6_A CVIR transcriptional re 23.3 1.3E+02 0.0044 28.9 6.2 44 309-367 197-240 (265)
No 1
>1cja_A Protein (actin-fragmin kinase); transferase; HET: AMP; 2.90A {Physarum polycephalum} SCOP: d.144.1.3
Probab=97.78 E-value=3.3e-05 Score=79.68 Aligned_cols=136 Identities=19% Similarity=0.197 Sum_probs=85.3
Q ss_pred cccCCCceEEEEEccCCCEEEEEecCCCCCcccCCCCCCCCCcCCCCCCccccccCcchhhhHHHHhhccC-CCCCCCCe
Q 040648 90 PVSSGLGGAYLLPGRNGDVIAVAKPIDEEPLAFNNPKGFGGLMLGQPGVKRSVRVGETGIRELAAYLLDHD-GFAGVPPT 168 (539)
Q Consensus 90 ~i~~GSgGSYfv~~~~G~~vaVFKP~DEEP~a~nNPkG~~~~~~g~~g~~rg~lvge~a~REVAAYLLD~~-Gf~~VPpT 168 (539)
++..|++|.|||.. ++ ...|.|+.. .-..|+=||.|-.. |.. +|..
T Consensus 76 ~s~~Gstgvff~~t-d~-~~~VVK~s~------------------------------~l~~E~l~s~LA~~LGlp-iP~~ 122 (342)
T 1cja_A 76 RSEKGTEGLFFVET-ES-GVFIVKRST------------------------------NIESETFCSLLCMRLGLH-APKV 122 (342)
T ss_dssp ECCSTTSCEEEEEE-SS-CEEEEECCT------------------------------THHHHHHHHHHHHHHTCC-CCCE
T ss_pred eccCCCCCeEEEEe-CC-CEEEEeCcH------------------------------HHHHHHHHHHHHHHhCCC-CCCe
Confidence 67889999999987 33 477888651 12678888888654 654 5999
Q ss_pred eEEEeeccccccc-cc-ccCCCC-------CC-CceeEeecccccCCcCCcC----CCcchhh---hhhhhhhcceeeec
Q 040648 169 ALVKISDVGFNVN-DT-AANSTA-------PY-KIASLQRFVEHEFDSGELG----SSSFSVA---SIHRIGIFDVRILN 231 (539)
Q Consensus 169 ~lV~l~hp~Fny~-~g-~~~~~~-------p~-KiGSlQ~FV~~~~~a~d~g----p~~Fpv~---evHKIaILDirI~N 231 (539)
.++++..+-|.-- .. ...... -. ...=++.||++..-. ++. ...|..+ ++-||.+||+.|+|
T Consensus 123 Riv~~~~~E~~e~~~~L~~~~~~~~~l~~l~~~~~~l~meyv~G~~L~-e~~~~~~~~~f~~~~~k~LG~Ii~FDi~InN 201 (342)
T 1cja_A 123 RVVSSNSEEGTNMLECLAAIDKSFRVITTLANQANILLMELVRGITLN-KLTTTSAPEVLTKSTMQQLGSLMALDVIVNN 201 (342)
T ss_dssp EEEESSSHHHHHHHHHHHHHCSSSCHHHHHTTCSEEEEEECCCEEEST-TCCSSSHHHHSCHHHHHHHHHHHHHHHHHTC
T ss_pred eEEeeCcHHHHHHHHHHHHhhhhhHHHHHhhcccceehhhhcCCCccc-cchhhhhhhhcCHHHHHhhchhheehhhhcC
Confidence 9998764433100 00 000000 01 122458888754421 111 1234333 34479999999999
Q ss_pred CCCC------C---CceEEeecCCCCCceeEEeecccccCcc
Q 040648 232 LDRH------A---GNILVKKHDRHGEAAELVPIDHGLCLPE 264 (539)
Q Consensus 232 tDRh------~---GNiLV~~~~~~~~~~~LvpIDHGLcFP~ 264 (539)
.||- . +|||+..+ ..++++|||+.||-.
T Consensus 202 ~DR~Pl~W~n~GN~~NIL~~~~-----n~~~~~IDhn~af~~ 238 (342)
T 1cja_A 202 SDRLPIAWTNEGNLDNIMLSER-----GATVVPIDSKIIPLD 238 (342)
T ss_dssp CSSSCSSSCSCCCGGGEEEESB-----TTCEEECSCCCCCCC
T ss_pred CccCcccccCCCChhheEEeCC-----CCeEEEEcCCccccC
Confidence 9997 3 36788764 238999999999986
No 2
>3akj_A CTKA; protein kinase, transferase; 2.00A {Helicobacter pylori} PDB: 3akk_A* 3akl_A*
Probab=95.91 E-value=0.0023 Score=64.76 Aligned_cols=49 Identities=24% Similarity=0.354 Sum_probs=36.9
Q ss_pred hhhhhhhhcceeeecCCCCCCceEEeecCCCCCceeEEe-ecccccCcccC
Q 040648 217 ASIHRIGIFDVRILNLDRHAGNILVKKHDRHGEAAELVP-IDHGLCLPEWL 266 (539)
Q Consensus 217 ~evHKIaILDirI~NtDRh~GNiLV~~~~~~~~~~~Lvp-IDHGLcFP~~l 266 (539)
.++-++.|||++|.|+|||..||=+-... ..+.++|.| .|||.++...+
T Consensus 139 ~~~~~~~vfn~LIgN~D~H~kN~s~l~~~-~tg~~~LAP~YD~~~s~~~~~ 188 (325)
T 3akj_A 139 CFFWDMFVADTLLGNFDRHNGNWGFLRAS-NSKEYQIAPIFDCGSCLYPQA 188 (325)
T ss_dssp HHHHHHHHHHHHHTCSCCCGGGCEEEEES-SSSCEEECCBCCCTTSSCTTC
T ss_pred HHHHHHHHhhHhhcCCCCCCcCeEEEEEC-CCCCEEecCcccccccccccC
Confidence 44669999999999999999998554432 113488888 59998886543
No 3
>3tpd_A Serine/threonine-protein kinase HIPA; persistence, multidrug tolerance, HIPB, transferase; 1.50A {Escherichia coli} PDB: 3tpe_A* 3tpv_B* 3tpt_A* 3hzi_A* 2wiu_A 3tpb_A 3dnu_A 3dnt_A 3dnv_A* 3fbr_A*
Probab=86.89 E-value=0.53 Score=48.99 Aligned_cols=38 Identities=26% Similarity=0.310 Sum_probs=29.8
Q ss_pred hhhhhhhhcceeeecCCCCCCceEEeecCCCCCceeEEee
Q 040648 217 ASIHRIGIFDVRILNLDRHAGNILVKKHDRHGEAAELVPI 256 (539)
Q Consensus 217 ~evHKIaILDirI~NtDRh~GNiLV~~~~~~~~~~~LvpI 256 (539)
.++-|..||.++|.|+|-|+.|+=+-..+ ++.++|.|.
T Consensus 293 ~~~~rr~vfn~ligN~D~H~KN~s~l~~~--~g~~~LaPa 330 (440)
T 3tpd_A 293 YDFMKFQVFQWLIGATDGHAKNFSVFIQA--GGSYRLTPF 330 (440)
T ss_dssp HHHHHHHHHHHHTTCCCCCGGGCEEEECG--GGCEEECCC
T ss_pred HHHHHHHHhhHhhcCCcCCccceEEEEcC--CCceEECch
Confidence 34557889999999999999999876632 345788876
No 4
>3ls8_A Phosphatidylinositol 3-kinase catalytic subunit type 3; alpha/beta protein, PIK3C3, compound 15E, structural genomics, SGC stockholm; HET: AJZ; 2.25A {Homo sapiens} PDB: 3ihy_A
Probab=74.88 E-value=0.87 Score=50.35 Aligned_cols=41 Identities=29% Similarity=0.336 Sum_probs=35.3
Q ss_pred hhhhhhhcceeeecCCCCCCceEEeecCCCCCceeEEeecccccCcc
Q 040648 218 SIHRIGIFDVRILNLDRHAGNILVKKHDRHGEAAELVPIDHGLCLPE 264 (539)
Q Consensus 218 evHKIaILDirI~NtDRh~GNiLV~~~~~~~~~~~LvpIDHGLcFP~ 264 (539)
..--..|.=|++.=.|||.+|||+.. .++++-||=|.||-.
T Consensus 463 S~A~ySvv~YILGigDRH~~NILld~------tG~v~HIDFG~~f~~ 503 (614)
T 3ls8_A 463 SCAGYCVITYILGVGDRHLDNLLLTK------TGKLFHIDFGYILGR 503 (614)
T ss_dssp HHHHHHHHHHHHTCCCCCTTSEEECT------TSCEEECCCSSCTTC
T ss_pred HHHHHhHhheeeeccCCCCcceeEcC------CCCEeeeehHHhhcc
Confidence 34467788899999999999999974 689999999999964
No 5
>2x6h_A GH13170P, VPS34, phosphotidylinositol 3 kinase 59F; transferase; 2.90A {Drosophila melanogaster} PDB: 2x6f_A 2x6i_A* 2x6j_A* 2x6k_A*
Probab=70.43 E-value=1.3 Score=49.71 Aligned_cols=41 Identities=27% Similarity=0.306 Sum_probs=35.7
Q ss_pred hhhhhhhcceeeecCCCCCCceEEeecCCCCCceeEEeecccccCcc
Q 040648 218 SIHRIGIFDVRILNLDRHAGNILVKKHDRHGEAAELVPIDHGLCLPE 264 (539)
Q Consensus 218 evHKIaILDirI~NtDRh~GNiLV~~~~~~~~~~~LvpIDHGLcFP~ 264 (539)
.+--.+|.=|++.=.|||.+||||.. .++|+-||=|.||-.
T Consensus 537 SlA~~Svv~YILGlGDRH~~NILid~------tG~v~HIDFG~~f~~ 577 (696)
T 2x6h_A 537 SCAGYCVITYLLGVGDRHLDNLLLTT------NGKLFHIDFGYILGR 577 (696)
T ss_dssp HHHHHHHHHHHHTCCCCCTTTEEECT------TSCEEECCCCSCTTC
T ss_pred HHHHHHHHHHHccCCCCCCcceEEeC------CCCEEEEeehhhhcc
Confidence 44467888999999999999999984 689999999999964
No 6
>3hhm_A Phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha isoform; PI3KCA, PI3K, PIK3R1, phosphatidilynositol 3,4,5- triphosphate, wortmannin, H1047R, ATP-binding, disease mutation, kinase; HET: KWT; 2.80A {Homo sapiens} PDB: 3hiz_A 2rd0_A 4a55_A* 2enq_A
Probab=69.47 E-value=1.5 Score=51.50 Aligned_cols=41 Identities=32% Similarity=0.332 Sum_probs=35.8
Q ss_pred hhhhhhhcceeeecCCCCCCceEEeecCCCCCceeEEeecccccCcc
Q 040648 218 SIHRIGIFDVRILNLDRHAGNILVKKHDRHGEAAELVPIDHGLCLPE 264 (539)
Q Consensus 218 evHKIaILDirI~NtDRh~GNiLV~~~~~~~~~~~LvpIDHGLcFP~ 264 (539)
..--.+|.=|++.=.|||.+|||+.. .++++.||=|.||-.
T Consensus 923 S~A~ysvv~YiLgigDRH~~NILid~------tG~v~HIDFG~~f~~ 963 (1091)
T 3hhm_A 923 SCAGYCVATFILGIGDRHNSNIMVKD------DGQLFHIDFGHFLDH 963 (1091)
T ss_dssp HHHHHHHHHHHHTCCCCCTTTEEEET------TSCEEECCCCCCSCC
T ss_pred HhhhhhheEEEEeecCCCCcceEEeC------CCCEEEEeehhhhcc
Confidence 44467888999999999999999985 589999999999964
No 7
>2wxf_A Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca subunit delta isoform; transferase, phosphoprotein, isoform-specific inhibitors; HET: 039; 1.90A {Mus musculus} PDB: 2wxg_A* 2wxh_A* 2wxi_A* 2wxj_A* 2wxk_A* 2wxl_A* 2wxm_A* 2wxn_A* 2wxo_A* 2wxp_A* 2wxq_A* 2wxr_A 2x38_A*
Probab=62.53 E-value=2.1 Score=49.52 Aligned_cols=41 Identities=27% Similarity=0.341 Sum_probs=35.2
Q ss_pred hhhhhhhcceeeecCCCCCCceEEeecCCCCCceeEEeecccccCcc
Q 040648 218 SIHRIGIFDVRILNLDRHAGNILVKKHDRHGEAAELVPIDHGLCLPE 264 (539)
Q Consensus 218 evHKIaILDirI~NtDRh~GNiLV~~~~~~~~~~~LvpIDHGLcFP~ 264 (539)
.+--+.|.=|++.=.|||.+|||+.. .++++-||=|.||-.
T Consensus 774 S~A~~Svv~YILGlgDRH~~NILid~------tG~v~HIDFG~~f~~ 814 (940)
T 2wxf_A 774 SCAGYCVATYVLGIGDRHSDNIMIRE------SGQLFHIDFGHFLGN 814 (940)
T ss_dssp HHHHHHHHHHHHTCCCCCGGGEEEET------TSCEEECCCCCCTTC
T ss_pred HHHHHHHHHHHhccCCCCcccEEEec------CCCEEEEeehhhhcc
Confidence 34467788899999999999999985 589999999999954
No 8
>1e7u_A Phosphatidylinositol 3-kinase catalytic subunit; phosphoinositide 3-kinase gamma, secondary messenger generation, PI3K, PI 3K, wortmannin; HET: KWT; 2.0A {Sus scrofa} SCOP: a.118.1.6 b.7.1.1 d.15.1.5 d.144.1.4 PDB: 1e8x_A* 1e8w_A* 1e7v_A* 1e90_A* 3l54_A* 3s2a_A* 3qaq_A* 3qjz_A* 3qk0_A* 3qar_A* 3apc_A* 3apd_A* 3apf_A* 3dbs_A* 3l13_A* 3r7q_A* 3cst_A* 3csf_A* 3l16_A* 3l17_A* ...
Probab=60.90 E-value=2.3 Score=49.23 Aligned_cols=41 Identities=27% Similarity=0.306 Sum_probs=33.2
Q ss_pred hhhhhhhcceeeecCCCCCCceEEeecCCCCCceeEEeecccccCcc
Q 040648 218 SIHRIGIFDVRILNLDRHAGNILVKKHDRHGEAAELVPIDHGLCLPE 264 (539)
Q Consensus 218 evHKIaILDirI~NtDRh~GNiLV~~~~~~~~~~~LvpIDHGLcFP~ 264 (539)
..--..|.=|++.=.|||.+|||+.. .++++-||=|.||-.
T Consensus 790 S~A~ySvv~YILGigDRH~~NILid~------tG~v~HIDFG~~f~~ 830 (961)
T 1e7u_A 790 SCAGYCVATFVLGIGDRHNDNIMISE------TGNLFHIDFGHILGN 830 (961)
T ss_dssp HHHHHHHHHHHTTCCCCCGGGEEEET------TCCEEECCCCCC---
T ss_pred HHHHHHHHHHHccccCCCCcceEEec------CCCEEEEeehhhhcc
Confidence 34467788899999999999999985 589999999999964
No 9
>2y3a_A Phosphatidylinositol-4,5-bisphosphate 3-kinase Ca subunit beta isoform; transferase, phosphoinositide 3-kinase, RTK; HET: GD9; 3.30A {Mus musculus}
Probab=60.32 E-value=2.7 Score=49.39 Aligned_cols=41 Identities=34% Similarity=0.361 Sum_probs=35.0
Q ss_pred hhhhhhhcceeeecCCCCCCceEEeecCCCCCceeEEeecccccCcc
Q 040648 218 SIHRIGIFDVRILNLDRHAGNILVKKHDRHGEAAELVPIDHGLCLPE 264 (539)
Q Consensus 218 evHKIaILDirI~NtDRh~GNiLV~~~~~~~~~~~LvpIDHGLcFP~ 264 (539)
.+--..|.=|++.=.|||.+|||+.. .++++-||=|.||-.
T Consensus 926 SlA~ySvv~YILGlGDRH~~NILid~------tG~v~HIDFG~~f~~ 966 (1092)
T 2y3a_A 926 SCAGYCVASYVLGIGDRHSDNIMVKK------TGQLFHIDFGHILGN 966 (1092)
T ss_dssp HHHHHHHHHHHTTCCCCCTTTEEECT------TSCEEECCCSCCSSC
T ss_pred HHHHHHHHHHHhcCCCCCCccEEEec------CCCEEEEeehhhhhc
Confidence 34467788899999999999999974 589999999999954
No 10
>3szt_A QCSR, quorum-sensing control repressor; quorum sensing acyl-homoserine lactone, helix-turn-helix, transcription factor, 3-OXO-C12 HSL; HET: OHN; 2.55A {Pseudomonas aeruginosa}
Probab=45.84 E-value=24 Score=33.21 Aligned_cols=99 Identities=16% Similarity=0.148 Sum_probs=57.4
Q ss_pred eecccccCcccCCCCCccccccCCCCCCCChhHHHHHh----cCChHHhH--HHHH------hcCCCChHHHHHHHHHHH
Q 040648 255 PIDHGLCLPEWLDDPYFEWLHWPQASVPFSEPELEYIC----NLDPYRDA--EILR------TELPTLRESSIRVLMLCT 322 (539)
Q Consensus 255 pIDHGLcFP~~l~d~~f~Wl~WPqA~~PFS~etl~yI~----sLD~~~D~--elLr------~~l~~lreeclr~LrisT 322 (539)
+|-||+++|...++..+.-+..--...+|+++++..+. .|-..... ..+. .....|++...++|+.
T Consensus 109 gl~~G~~~p~~~~~g~~g~ls~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~Lt~re~~vl~~-- 186 (237)
T 3szt_A 109 GIRHGWSIPVRGKYGLISMLSLVRSSESIAATEILEKESFLLWITSMLQATFGDLLAPRIVPESNVRLTARETEMLKW-- 186 (237)
T ss_dssp TCCEEEEEEEECGGGCEEEEEEEESSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSGGGGCCCCHHHHHHHHH--
T ss_pred CCCCEEEEEeeCCCCCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCCCCCCCCHHHHHHHHH--
Confidence 44577888875444444444443344578887765442 11111111 1111 1123567766666554
Q ss_pred HHHHHHHHcCCCHHHHhhhhhcccCCCCCCCchHHHHHHHHHHhhc
Q 040648 323 IFLKQTAAAGLCLGDIGEMMTREFCGGEEKLSVLETLCAKVKESMM 368 (539)
Q Consensus 323 ~~LK~aa~~GLtl~eIg~~m~Re~~~~~e~~S~lE~l~~~A~~~~~ 368 (539)
+..|+|..|||.+|.-. ++-++..+..+...+.
T Consensus 187 ------~~~G~s~~eIa~~l~is-------~~tV~~~~~~~~~kl~ 219 (237)
T 3szt_A 187 ------TAVGKTYGEIGLILSID-------QRTVKFHIVNAMRKLN 219 (237)
T ss_dssp ------HHTTCCHHHHHHHHTSC-------HHHHHHHHHHHHHHTT
T ss_pred ------HHcCCCHHHHHHHHCCC-------HHHHHHHHHHHHHHhC
Confidence 25899999999999766 4677777777776653
No 11
>1m3w_A H10H24; four-helix bundle, heme binding, maquette, heme binding protein, electron transport, de novo protein; 2.80A {Synthetic} SCOP: k.8.1.1
Probab=39.93 E-value=22 Score=24.72 Aligned_cols=23 Identities=43% Similarity=0.596 Sum_probs=16.3
Q ss_pred hHHH---HHHHHHHHHhHHHHHhhhc
Q 040648 504 GEWE---MFLETFEVLLPEVIERTKS 526 (539)
Q Consensus 504 ~ew~---~fl~~f~~ll~~a~~~~~~ 526 (539)
+-|+ .||.+|++||.--=|+-|.
T Consensus 5 eiwklheeflkkfeellklheerlkk 30 (32)
T 1m3w_A 5 EIWKLHEEFLKKFEELLKLHEERLKK 30 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4465 5999999999765555443
No 12
>1b0n_B Protein (SINI protein); transcription regulator, antagonist, sporulation; 1.90A {Bacillus subtilis} SCOP: a.34.1.1
Probab=36.80 E-value=24 Score=27.78 Aligned_cols=24 Identities=8% Similarity=0.120 Sum_probs=21.2
Q ss_pred HHHHHHHHcCCCHHHHhhhhhccc
Q 040648 323 IFLKQTAAAGLCLGDIGEMMTREF 346 (539)
Q Consensus 323 ~~LK~aa~~GLtl~eIg~~m~Re~ 346 (539)
.|+++|-+.|+|+-||..++....
T Consensus 17 ~LI~~Ak~lGlsleEIrefL~l~~ 40 (57)
T 1b0n_B 17 ELMVEAKEANISPEEIRKYLLLNK 40 (57)
T ss_dssp HHHHHHHHTTCCHHHHHHHHHHC-
T ss_pred HHHHHHHHcCCCHHHHHHHHHHhc
Confidence 589999999999999999998764
No 13
>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_O 1ysh_E 3jyv_O* 1s1h_O
Probab=34.23 E-value=61 Score=30.21 Aligned_cols=37 Identities=27% Similarity=0.277 Sum_probs=27.8
Q ss_pred HHcCCCHHHHhhhhhcccCC---------------------CCCCCchHHHHHHHHHHh
Q 040648 329 AAAGLCLGDIGEMMTREFCG---------------------GEEKLSVLETLCAKVKES 366 (539)
Q Consensus 329 a~~GLtl~eIg~~m~Re~~~---------------------~~e~~S~lE~l~~~A~~~ 366 (539)
|..|+|+.|||.++ |+..+ .++-|-+|-.||.+|...
T Consensus 43 akkG~tpSqIG~iL-RD~~GIp~Vk~vtG~kI~rILk~~glapeiPEDL~~LikKAv~l 100 (153)
T 2xzm_O 43 AKKGLTPSQIGVIL-RDQHGIPQVRFLTGQKILRILKKNGCAPQLPEDLYFLIKKALSI 100 (153)
T ss_dssp HHTTCCHHHHHHHH-HHSSCCSCHHHHHSSCHHHHHHHTTCCCSSCHHHHHHHHHHHHH
T ss_pred HHCCCCHHHhhhHH-hhcCCCCCeeeeccchHHHHHHHcCCCCCCcHHHHHHHHHHHHH
Confidence 47899999999877 43322 467788888888888765
No 14
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis}
Probab=33.50 E-value=35 Score=27.31 Aligned_cols=56 Identities=11% Similarity=0.075 Sum_probs=41.2
Q ss_pred HhHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHcCCCHHHHhhhhhcccCCCCCCCchHHHHHHHHHHhh
Q 040648 298 RDAEILRTELPTLRESSIRVLMLCTIFLKQTAAAGLCLGDIGEMMTREFCGGEEKLSVLETLCAKVKESM 367 (539)
Q Consensus 298 ~D~elLr~~l~~lreeclr~LrisT~~LK~aa~~GLtl~eIg~~m~Re~~~~~e~~S~lE~l~~~A~~~~ 367 (539)
...+.|+..+..|.+.+..+|.+. ...|+|..|||.+|--. .+.+...+.+|+..+
T Consensus 26 ~~~~~l~~~l~~L~~~~r~vl~l~-------~~~g~s~~eIA~~lgis-------~~tV~~~l~ra~~~L 81 (92)
T 3hug_A 26 LDRLLIADALAQLSAEHRAVIQRS-------YYRGWSTAQIATDLGIA-------EGTVKSRLHYAVRAL 81 (92)
T ss_dssp HHHHHHHHHHHTSCHHHHHHHHHH-------HTSCCCHHHHHHHHTSC-------HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHH-------HHcCCCHHHHHHHHCcC-------HHHHHHHHHHHHHHH
Confidence 345566666666778777766543 26899999999999765 577888888887765
No 15
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis}
Probab=28.41 E-value=1.5e+02 Score=21.60 Aligned_cols=57 Identities=16% Similarity=0.290 Sum_probs=42.9
Q ss_pred HhHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHcCCCHHHHhhhhhcccCCCCCCCchHHHHHHHHHHhhc
Q 040648 298 RDAEILRTELPTLRESSIRVLMLCTIFLKQTAAAGLCLGDIGEMMTREFCGGEEKLSVLETLCAKVKESMM 368 (539)
Q Consensus 298 ~D~elLr~~l~~lreeclr~LrisT~~LK~aa~~GLtl~eIg~~m~Re~~~~~e~~S~lE~l~~~A~~~~~ 368 (539)
...+.|...+..|++.+..+++..- ..|+|..|||..|--. ++.+...+..|+..+.
T Consensus 4 e~~~~l~~~l~~L~~~~r~il~l~~-------~~g~s~~eIA~~lgis-------~~tv~~~~~ra~~~l~ 60 (70)
T 2o8x_A 4 EDLVEVTTMIADLTTDQREALLLTQ-------LLGLSYADAAAVCGCP-------VGTIRSRVARARDALL 60 (70)
T ss_dssp HHHHHHHTTTTSSCHHHHHHHHHHH-------TSCCCHHHHHHHHTSC-------HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHH-------HcCCCHHHHHHHHCcC-------HHHHHHHHHHHHHHHH
Confidence 3455677777778888877665432 4799999999999654 5788888888888774
No 16
>1npb_A Fosfomycin-resistance protein; manganese binding, potassium binding loop, transferase; 2.50A {Serratia marcescens} SCOP: d.32.1.2
Probab=27.90 E-value=29 Score=28.63 Aligned_cols=48 Identities=13% Similarity=0.079 Sum_probs=30.3
Q ss_pred HHHHHHcCCCCccccCCCceEEEEEccCCCEEEEEecCCCCCcccCCC
Q 040648 78 VAIALASGVKPIPVSSGLGGAYLLPGRNGDVIAVAKPIDEEPLAFNNP 125 (539)
Q Consensus 78 v~~ai~~Gi~P~~i~~GSgGSYfv~~~~G~~vaVFKP~DEEP~a~nNP 125 (539)
+....+.|+.........+-..|++|.+|..+.|+-+..++++....+
T Consensus 81 ~~~l~~~G~~~~~~~~~~~~~~~~~DPdG~~iel~~~~~~~~l~~~~~ 128 (141)
T 1npb_A 81 SQRLEQAGVTIWKQNKSEGASFYFLDPDGHKLELHVGSLAARLAACRE 128 (141)
T ss_dssp HHHHHHTTCCEEECCCSSSEEEEEECTTCCEEEEEECCHHHHHHHHHH
T ss_pred HHHHHHCCCeEeccCCCceeEEEEECCCCCEEEEEECchhhhHHHhcc
Confidence 344456787543332222345778899999999998877665544333
No 17
>3qp6_A CVIR transcriptional regulator; quorum sensing, agonist, antagonist, LUXR, acylated homoseri lactone, transcription factor; HET: HL6; 2.00A {Chromobacterium violaceum} PDB: 3qp5_A*
Probab=23.31 E-value=1.3e+02 Score=28.87 Aligned_cols=44 Identities=11% Similarity=0.144 Sum_probs=30.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHcCCCHHHHhhhhhcccCCCCCCCchHHHHHHHHHHhh
Q 040648 309 TLRESSIRVLMLCTIFLKQTAAAGLCLGDIGEMMTREFCGGEEKLSVLETLCAKVKESM 367 (539)
Q Consensus 309 ~lreeclr~LrisT~~LK~aa~~GLtl~eIg~~m~Re~~~~~e~~S~lE~l~~~A~~~~ 367 (539)
.|++...++|+.. ..|+|..|||.+|.-. +.-++..+..|...+
T Consensus 197 ~Lt~re~~vl~~~--------~~G~s~~eIA~~l~is-------~~TV~~~~~~~~~kl 240 (265)
T 3qp6_A 197 PLSQREYDIFHWM--------SRGKTNWEIATILNIS-------ERTVKFHVANVIRKL 240 (265)
T ss_dssp CCCHHHHHHHHHH--------HTTCCHHHHHHHHTSC-------HHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHH--------HcCCCHHHHHHHHCcC-------HHHHHHHHHHHHHHh
Confidence 4666666655432 4799999999999766 466677776666655
Done!