Query 045445
Match_columns 128
No_of_seqs 131 out of 1150
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 23:32:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045445.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/045445hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1zbt_A RF-1, peptide chain rel 100.0 1.3E-32 4.4E-37 233.5 4.0 96 10-105 207-327 (371)
2 1rq0_A RF-1, peptide chain rel 100.0 2.1E-32 7.2E-37 230.2 4.0 95 11-105 171-290 (342)
3 2b3t_B RF-1, peptide chain rel 100.0 2.3E-32 7.9E-37 231.2 4.2 95 11-105 194-314 (360)
4 3d5a_X RF1, peptide chain rele 100.0 1.2E-32 4.2E-37 232.5 2.1 96 10-105 189-309 (354)
5 1gqe_A Release factor 2, RF2; 100.0 7.3E-31 2.5E-35 222.3 4.3 95 10-105 210-330 (365)
6 2ihr_1 Peptide chain release f 100.0 1.6E-30 5.6E-35 220.2 5.0 96 10-105 198-318 (365)
7 2rsm_A Probable peptide chain 99.9 8.4E-28 2.9E-32 176.5 4.7 70 15-84 24-101 (115)
8 1j26_A Immature colon carcinom 99.9 3.6E-22 1.2E-26 145.4 5.2 59 26-84 13-100 (112)
9 2jva_A Peptidyl-tRNA hydrolase 99.9 3.4E-22 1.2E-26 144.8 4.7 56 29-84 9-92 (108)
10 4dh9_Y YAEJ; ribosome, YAEJ, r 99.8 1.2E-20 4E-25 141.9 3.2 55 30-84 10-92 (140)
11 3e7l_A Transcriptional regulat 84.5 0.73 2.5E-05 28.5 2.8 22 106-127 23-44 (63)
12 1umq_A Photosynthetic apparatu 79.5 1.3 4.5E-05 29.6 2.8 23 106-128 45-67 (81)
13 1ntc_A Protein (nitrogen regul 76.1 1.6 5.5E-05 28.8 2.4 23 106-128 55-77 (91)
14 1eto_A FIS, factor for inversi 72.9 2.5 8.6E-05 28.9 2.8 23 106-128 62-84 (98)
15 1g2h_A Transcriptional regulat 71.0 3.2 0.00011 25.5 2.7 22 106-128 25-46 (61)
16 2jn6_A Protein CGL2762, transp 45.0 9.4 0.00032 24.6 1.6 29 99-127 4-35 (97)
17 2glo_A Brinker CG9653-PA; prot 42.0 16 0.00054 21.7 2.2 28 99-127 4-37 (59)
18 1ojl_A Transcriptional regulat 41.1 16 0.00054 28.5 2.6 23 106-128 272-294 (304)
19 2elh_A CG11849-PA, LD40883P; s 39.7 16 0.00056 23.3 2.1 29 98-127 20-50 (87)
20 2pij_A Prophage PFL 6 CRO; tra 35.7 27 0.00093 20.4 2.5 20 107-127 6-25 (67)
21 1jko_C HIN recombinase, DNA-in 35.5 46 0.0016 17.9 3.4 21 106-127 13-33 (52)
22 2jpc_A SSRB; DNA binding prote 34.7 28 0.00097 20.0 2.5 22 106-128 5-26 (61)
23 1tc3_C Protein (TC3 transposas 32.4 31 0.0011 18.1 2.3 21 106-127 13-33 (51)
24 1n4k_A Inositol 1,4,5-trisphos 32.2 57 0.002 26.9 4.7 21 53-73 76-96 (381)
25 1vig_A Vigilin; RNA-binding pr 30.0 13 0.00044 23.3 0.4 22 44-65 21-44 (71)
26 1fse_A GERE; helix-turn-helix 27.7 41 0.0014 19.8 2.4 22 106-128 18-39 (74)
27 2ftc_B Mitochondrial ribosomal 27.6 32 0.0011 25.1 2.1 27 38-65 80-106 (136)
28 2o8x_A Probable RNA polymerase 26.3 54 0.0018 19.0 2.7 23 106-128 22-44 (70)
29 3hug_A RNA polymerase sigma fa 26.1 47 0.0016 21.0 2.6 23 106-128 44-66 (92)
30 3c57_A Two component transcrip 24.6 52 0.0018 21.2 2.6 21 106-127 34-54 (95)
31 1je8_A Nitrate/nitrite respons 24.1 50 0.0017 20.7 2.4 21 106-127 28-48 (82)
32 1uw4_A UPF3X; nonsense mediate 24.1 32 0.0011 23.2 1.5 13 55-67 2-14 (91)
33 1pdn_C Protein (PRD paired); p 23.8 46 0.0016 21.2 2.2 27 100-127 17-45 (128)
34 2l08_A Regulator of nonsense t 21.6 43 0.0015 23.1 1.8 21 47-67 2-22 (97)
35 1x3u_A Transcriptional regulat 21.1 68 0.0023 19.2 2.5 21 106-127 23-43 (79)
36 3ulq_B Transcriptional regulat 21.0 69 0.0023 20.7 2.6 21 106-127 36-56 (90)
37 3onq_A Regulator of polyketide 20.5 64 0.0022 24.9 2.8 22 106-127 200-221 (262)
38 1k78_A Paired box protein PAX5 20.4 56 0.0019 22.1 2.2 27 100-127 32-60 (149)
No 1
>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor 1 (RF-1), structural joint center for structural genomics, JCSG; 2.34A {Streptococcus mutans}
Probab=99.97 E-value=1.3e-32 Score=233.51 Aligned_cols=96 Identities=26% Similarity=0.331 Sum_probs=78.2
Q ss_pred CcccccccccceeeccCCcc---cccCceeEEEEeecCCCCcccccccccEEEEeeCCceEEEeeccC----ChhhHhhh
Q 045445 10 DNCSSTSSSSKKNYFELTDD---EQFRECEMDTYKSSGPGGQHRNKRESAVRLKHVPTASSVNLDAYL----PPPQLLQI 82 (128)
Q Consensus 10 d~~~~tS~a~v~v~p~l~~~---~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~H~PtGi~v~~~~~R----Nr~~A~~~ 82 (128)
.-++|||||+|.++|.+++. ++++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++| ||+.||++
T Consensus 207 ~gR~hTS~asV~V~Pe~~ev~i~I~~~dl~i~~~RssGpGGQ~VNkt~SaVrlthlPtGivV~~q~eRSQ~~Nr~~A~~~ 286 (371)
T 1zbt_A 207 QGRVHTSTATVLVMPEVEEVEYEIDPKDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEMQEERTQQKNRDKAMKI 286 (371)
T ss_dssp SCCCEEEEEEEEEEECCCGGGSCCCGGGEEEEEECC---------CCCCEEEEEETTTTEEEEECSSSSHHHHHHHHHHH
T ss_pred CCcccccceEEEEeccccccccccCcCcEEEEEecCCCCCCCcccccceeEEEEECCCeEEEEECCcCCHHHHHHHHHHH
Confidence 36899999999999999873 678999999999999999999999999999999999999999999 99999999
Q ss_pred CC------------------cccccccCCCCCCCCCCCCCh
Q 045445 83 LP------------------PKFTIRCSEVGPQIRPNNPKF 105 (128)
Q Consensus 83 L~------------------~~~q~~~~~r~~kIrtyn~~f 105 (128)
|+ ++.+++.++||++|||||+..
T Consensus 287 L~~~L~~~~~~~~~~~~~~~r~~~ig~g~Rse~IRtYnf~q 327 (371)
T 1zbt_A 287 IRARVADHFAQIAQDEQDAERKSTVGTGDRSERIRTYNFPQ 327 (371)
T ss_dssp HHHHHHHHHHHHHHHHTCC----CCSCSCTTSEEEEEETTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccccCCCeeeEECCC
Confidence 86 778899999999999999765
No 2
>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide release factor 1, ribosome, structural genomics, BSGC structure funded by NIH; 2.65A {Thermotoga maritima} SCOP: e.38.1.1 PDB: 2fvo_A
Probab=99.97 E-value=2.1e-32 Score=230.22 Aligned_cols=95 Identities=31% Similarity=0.351 Sum_probs=77.2
Q ss_pred cccccccccceeeccCCcc---cccCceeEEEEeecCCCCcccccccccEEEEeeCCceEEEeeccC----ChhhHhhhC
Q 045445 11 NCSSTSSSSKKNYFELTDD---EQFRECEMDTYKSSGPGGQHRNKRESAVRLKHVPTASSVNLDAYL----PPPQLLQIL 83 (128)
Q Consensus 11 ~~~~tS~a~v~v~p~l~~~---~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~H~PtGi~v~~~~~R----Nr~~A~~~L 83 (128)
-++|||||+|.++|.+++. ++++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++| ||+.||++|
T Consensus 171 gR~hTS~asV~V~Pe~~~~~i~i~~~dl~i~~~RssGpGGQ~VNKt~SaVrl~hlPtGivv~~q~~RSQ~~Nr~~A~~~L 250 (342)
T 1rq0_A 171 GRIHTSTATVAVLPEIEEKDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRIL 250 (342)
T ss_dssp CCCEEEEEEEEEEECCCGGGSCCCGGGEEEEEECCCC----CCSSSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHH
T ss_pred CCCcccceEEEEeccccccccccChhHeEEEeecCCCCCCcccccccceEEEEECCCeEEEEECCCCCHHHHHHHHHHHH
Confidence 5899999999999999773 678999999999999999999999999999999999999999999 999999998
Q ss_pred C------------------cccccccCCCCCCCCCCCCCh
Q 045445 84 P------------------PKFTIRCSEVGPQIRPNNPKF 105 (128)
Q Consensus 84 ~------------------~~~q~~~~~r~~kIrtyn~~f 105 (128)
+ ++++++.++||++|||||+..
T Consensus 251 ~~~L~~~~~~~~~~~~~~~r~~~i~~g~Rse~IRtYnf~~ 290 (342)
T 1rq0_A 251 RARLYQLQKEQKEREISQKRKSQIGTGERSEKIRTYNFPQ 290 (342)
T ss_dssp HHHHHHHHHHHHHTTTCC----------CCCEEEEEETTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccccccCCeEEEECCC
Confidence 6 778888899999999999765
No 3
>2b3t_B RF-1, peptide chain release factor 1; translation termination, methylation, conformational changes; HET: SAH; 3.10A {Escherichia coli} SCOP: e.38.1.1
Probab=99.97 E-value=2.3e-32 Score=231.18 Aligned_cols=95 Identities=27% Similarity=0.337 Sum_probs=82.0
Q ss_pred cccccccccceeeccCCcc----cccCceeEEEEeecCCCCcccccccccEEEEeeCCceEEEeeccC----ChhhHhhh
Q 045445 11 NCSSTSSSSKKNYFELTDD----EQFRECEMDTYKSSGPGGQHRNKRESAVRLKHVPTASSVNLDAYL----PPPQLLQI 82 (128)
Q Consensus 11 ~~~~tS~a~v~v~p~l~~~----~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~H~PtGi~v~~~~~R----Nr~~A~~~ 82 (128)
-++|||||+|.++|.+++. ++++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++| ||+.|+++
T Consensus 194 gR~hTS~asV~V~Pe~~~~e~i~i~~~dl~i~~~RssG~GGQ~VNkt~saVrl~hlPtGivv~~q~~RSQ~~Nr~~A~~~ 273 (360)
T 2b3t_B 194 GRIHTSACTVAVMPELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSV 273 (360)
T ss_dssp CCCEEEEEEEECCBCCCTTTCCCCCSSSEEEEECCSSCCCTTTCCCSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHH
T ss_pred CcCCccceEEEEecCcccccccccChhheEEeeecCCCCCCCccccccceEEEEECCCeEEEEECCCCCHHHHHHHHHHH
Confidence 6899999999999998763 568999999999999999999999999999999999999999999 99999998
Q ss_pred CC------------------cccccccCCCCCCCCCCCCCh
Q 045445 83 LP------------------PKFTIRCSEVGPQIRPNNPKF 105 (128)
Q Consensus 83 L~------------------~~~q~~~~~r~~kIrtyn~~f 105 (128)
|+ ++.+++.++||++|||||+..
T Consensus 274 L~~~L~~~~~~~~~~~~~~~r~~~i~~g~rse~IRtYnf~~ 314 (360)
T 2b3t_B 274 LGARIHAAEMAKRQQAEASTRRNLLGSGDRSDRNRTYNFPQ 314 (360)
T ss_dssp HHHHHTTTTTTSCC------CCC-------CCEEEEEETTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccccccCCeeeEECCC
Confidence 86 778888899999999999765
No 4
>3d5a_X RF1, peptide chain release factor 1; ribosome, ribonucleoprotein, ribosomal protein, RNA-binding, binding, metal-binding, zinc-finger; 3.21A {Thermus thermophilus} PDB: 2b64_Y 3d5c_X 3mr8_V 3ms0_V
Probab=99.97 E-value=1.2e-32 Score=232.46 Aligned_cols=96 Identities=28% Similarity=0.318 Sum_probs=89.4
Q ss_pred CcccccccccceeeccCCcc---cccCceeEEEEeecCCCCcccccccccEEEEeeCCceEEEeeccC----ChhhHhhh
Q 045445 10 DNCSSTSSSSKKNYFELTDD---EQFRECEMDTYKSSGPGGQHRNKRESAVRLKHVPTASSVNLDAYL----PPPQLLQI 82 (128)
Q Consensus 10 d~~~~tS~a~v~v~p~l~~~---~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~H~PtGi~v~~~~~R----Nr~~A~~~ 82 (128)
--++|||||+|.++|.+++. ++++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++| ||+.||++
T Consensus 189 ~gR~hTS~asV~V~P~~~~~~i~i~~~dl~i~~~RssG~GGQ~VNkt~SaVrl~HlPtgivv~~q~~RSQ~~Nr~~A~~~ 268 (354)
T 3d5a_X 189 QGRIHTSTATVAVLPKAEEEDFALNMDEIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKALMI 268 (354)
T ss_dssp SCCCEEEEEEEEEEECCCCCCCCCCGGGEEEEEECCCSCCHHHHHHCCCEEEEEETTTTEEEEECCSSCHHHHHHHHHHH
T ss_pred CCcCccCceEEEEeccCcccccccCccceEEEeecCCCCCCcccccccceEEEEEcCCeEEEEECCCCCHHHHHHHHHHH
Confidence 35899999999999998763 678999999999999999999999999999999999999999999 99999999
Q ss_pred CC------------------cccccccCCCCCCCCCCCCCh
Q 045445 83 LP------------------PKFTIRCSEVGPQIRPNNPKF 105 (128)
Q Consensus 83 L~------------------~~~q~~~~~r~~kIrtyn~~f 105 (128)
|+ ++.+++.++||++|||||+..
T Consensus 269 L~~~L~~~~~~~~~~~~~~~r~~~i~~g~rse~IRtYnf~q 309 (354)
T 3d5a_X 269 LRSRLLEMKRAEEAERLRKTRLAQIGTGERSEKIRTYNFPQ 309 (354)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHSCGGGGSCSSEEEETTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccccccCCeeeEECCC
Confidence 97 677899999999999999765
No 5
>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular mimicry, translation; 1.81A {Escherichia coli} SCOP: e.38.1.1 PDB: 1mi6_A 1ml5_Z*
Probab=99.96 E-value=7.3e-31 Score=222.32 Aligned_cols=95 Identities=32% Similarity=0.347 Sum_probs=83.0
Q ss_pred CcccccccccceeeccCCcc----cccCceeEEEEeecCCCCcccccccccEEEEeeCCceEEEeeccC----ChhhHhh
Q 045445 10 DNCSSTSSSSKKNYFELTDD----EQFRECEMDTYKSSGPGGQHRNKRESAVRLKHVPTASSVNLDAYL----PPPQLLQ 81 (128)
Q Consensus 10 d~~~~tS~a~v~v~p~l~~~----~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~H~PtGi~v~~~~~R----Nr~~A~~ 81 (128)
-.++|||||+|.++|.++++ +.++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++| ||..|++
T Consensus 210 ~gRrhTS~asV~V~Pe~~~~v~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~HiPtgivv~~q~~RSQ~~Nr~~A~~ 289 (365)
T 1gqe_A 210 GGRRHTSFSSAFVYPEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMK 289 (365)
T ss_dssp SCCEEEEEEEEEEEECCBTTBCCCCCGGGEEEEEECCCCSSCCSTTSSCCEEEEEETTTCCEEEECSSSCHHHHHHHHHH
T ss_pred cCCCCcceeEEEEecCCCcccccccCHHHceEeeecCCCCCCCcccCccceEEEEECCCeEEEEECCCCCHHHHHHHHHH
Confidence 36899999999999999753 678999999999999999999999999999999999999999999 9999999
Q ss_pred hCC------------------cccccccCCCCCCCCCCCCCh
Q 045445 82 ILP------------------PKFTIRCSEVGPQIRPNNPKF 105 (128)
Q Consensus 82 ~L~------------------~~~q~~~~~r~~kIrtyn~~f 105 (128)
+|+ ++.+ ..-.||+||||||+..
T Consensus 290 ~L~~~L~~~~~~~~~~~~~~~r~~~-~~i~~G~~IRtY~f~~ 330 (365)
T 1gqe_A 290 QMKAKLYEVEMQKKNAEKQAMEDNK-SDIGWGSQIRSYVLDD 330 (365)
T ss_dssp HHHHHHHHHHHHHHHHHTTCCSTTC-CCCCSCSEEEEEEGGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh-cccCccCCeEeEECCC
Confidence 987 2211 1236888999999644
No 6
>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation; 2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X 2x9r_Y* 2x9t_Y* 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y
Probab=99.96 E-value=1.6e-30 Score=220.22 Aligned_cols=96 Identities=30% Similarity=0.336 Sum_probs=83.2
Q ss_pred CcccccccccceeeccCCcc----cccCceeEEEEeecCCCCcccccccccEEEEeeCCceEEEeeccC----ChhhHhh
Q 045445 10 DNCSSTSSSSKKNYFELTDD----EQFRECEMDTYKSSGPGGQHRNKRESAVRLKHVPTASSVNLDAYL----PPPQLLQ 81 (128)
Q Consensus 10 d~~~~tS~a~v~v~p~l~~~----~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~H~PtGi~v~~~~~R----Nr~~A~~ 81 (128)
--++|||||+|.++|.+++. ++++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++| ||..||+
T Consensus 198 ~gRrhTS~asV~V~P~~~~~~~i~i~~~dl~i~~~RssG~GGQ~VNkt~saVrl~h~Ptgivv~~q~~RSQ~~Nr~~A~~ 277 (365)
T 2ihr_1 198 SGRRHTSFAGVEVIPEVDEEVEVVLKPEELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALK 277 (365)
T ss_dssp SCCEEEEEEEEEEEEECCSSSSCCCCGGGEEEEEECCCCSSCCSGGGSCSEEEEEETTTTEEEEECSSSCHHHHHHHHHH
T ss_pred cCCccceeEEEEEecCCCcccccccCccceEEEEeecCCCCCceecccceEEEEEEcCCeEEEEECCCCCHHHHHHHHHH
Confidence 36899999999999999763 678999999999999999999999999999999999999999999 9999999
Q ss_pred hCC-------------cccccc----cCCCCCCCCCCCCCh
Q 045445 82 ILP-------------PKFTIR----CSEVGPQIRPNNPKF 105 (128)
Q Consensus 82 ~L~-------------~~~q~~----~~~r~~kIrtyn~~f 105 (128)
+|+ ....++ .-.||++|||||+.-
T Consensus 278 ~L~~~L~~~~~~~~~~~~~~~r~~~~~i~~G~~IRtYnf~~ 318 (365)
T 2ihr_1 278 ILKARLYELERKKREEELKALRGEVRPIEWGSQIRSYVLDK 318 (365)
T ss_dssp HHHHHHHHHHHHHHHHHTTTTTCCSCCSCCCSCSEEEEGGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccCccCCeeeEECCC
Confidence 987 111111 236778999999765
No 7
>2rsm_A Probable peptide chain release factor C12ORF65 HO mitochondrial; GGQ domain, translation; NMR {Mus musculus}
Probab=99.94 E-value=8.4e-28 Score=176.49 Aligned_cols=70 Identities=27% Similarity=0.243 Sum_probs=66.6
Q ss_pred cccccceeeccCCcc----cccCceeEEEEeecCCCCcccccccccEEEEeeCCceEEEeeccC----ChhhHhhhCC
Q 045445 15 TSSSSKKNYFELTDD----EQFRECEMDTYKSSGPGGQHRNKRESAVRLKHVPTASSVNLDAYL----PPPQLLQILP 84 (128)
Q Consensus 15 tS~a~v~v~p~l~~~----~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~H~PtGi~v~~~~~R----Nr~~A~~~L~ 84 (128)
||+++|.++|+.++. ++++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++| ||+.||++|+
T Consensus 24 ts~~~v~v~p~~d~~~~l~I~~~dl~~~~~RssGpGGQ~VNKt~SaVrl~H~PTGivV~~q~~RSQ~~Nr~~A~~~L~ 101 (115)
T 2rsm_A 24 MAASTVQVAGRKDYPALLPLNESELEEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKIARKVLQ 101 (115)
T ss_dssp CCCCCCCCCSCCCCCCSCCCCGGGCEEEECSCCCSCSSSCCCSCCCEEEECTTTCCEEEECCSSCHHHHHHHHHHHHH
T ss_pred cceEEEEeccccCCCccCCcCHHHeEEEEeeCCCCCccccCccceeEEEecCCCCcEEEEcCCCCHHHHHHHHHHHHH
Confidence 999999999998753 678999999999999999999999999999999999999999999 9999999987
No 8
>1j26_A Immature colon carcinoma transcript 1; peptide chain release factors, RF-1, the GGQ motif, immature carcinoma transcript 1; NMR {Mus musculus} SCOP: d.50.4.1
Probab=99.85 E-value=3.6e-22 Score=145.41 Aligned_cols=59 Identities=24% Similarity=0.330 Sum_probs=54.7
Q ss_pred CCcccccCceeEEEEeecCCCCcccccccccEEEE-eeCCc------------------------eEEEeeccC----Ch
Q 045445 26 LTDDEQFRECEMDTYKSSGPGGQHRNKRESAVRLK-HVPTA------------------------SSVNLDAYL----PP 76 (128)
Q Consensus 26 l~~~~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~-H~PtG------------------------i~v~~~~~R----Nr 76 (128)
|+-.+.++||+++|+|||||||||||||+|+|+|+ |+|+| |+|+|+++| ||
T Consensus 13 ~~i~I~~~dl~~~~~RssGpGGQnVNKv~SaV~Lrf~i~t~~~Lp~~~k~rl~~~~~~ri~~~G~ivv~~q~~RSQ~~Nr 92 (112)
T 1j26_A 13 ASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQFRNL 92 (112)
T ss_dssp SCCCCCTTTSEEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCSSSEEEEEECCCSSHHHHH
T ss_pred eEEecChHHeEEEEEECCCCCCCCccCCcceEEEEEeccccccCCHHHHHHHHHhhccccccCCeEEEEECCccCHHHHH
Confidence 44456789999999999999999999999999998 99998 999999999 99
Q ss_pred hhHhhhCC
Q 045445 77 PQLLQILP 84 (128)
Q Consensus 77 ~~A~~~L~ 84 (128)
++||++|.
T Consensus 93 ~~Al~rL~ 100 (112)
T 1j26_A 93 AECLQKIR 100 (112)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 99999986
No 9
>2jva_A Peptidyl-tRNA hydrolase domain protein; GFT hydrolase, structural genomics, PSI-2, protein STRU initiative; NMR {Pseudomonas syringae PV}
Probab=99.85 E-value=3.4e-22 Score=144.80 Aligned_cols=56 Identities=27% Similarity=0.377 Sum_probs=52.9
Q ss_pred ccccCceeEEEEeecCCCCcccccccccEEEEe------eC-----------------Cc-eEEEeeccC----ChhhHh
Q 045445 29 DEQFRECEMDTYKSSGPGGQHRNKRESAVRLKH------VP-----------------TA-SSVNLDAYL----PPPQLL 80 (128)
Q Consensus 29 ~~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~H------~P-----------------tG-i~v~~~~~R----Nr~~A~ 80 (128)
.+.++||+++|+|||||||||||||+|+|+|+| +| +| |.|+|+++| ||+.|+
T Consensus 9 ~I~~~dl~~~~~RssGpGGQnVNKv~SaV~L~~d~~~s~lP~~~k~rl~~~~~~ri~~~G~ivv~~q~~RSQ~~Nr~~Al 88 (108)
T 2jva_A 9 HLPDAEIELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITSDGVIVLKAQQYRTQEQNRADAL 88 (108)
T ss_dssp EECGGGEEEEECCCTTCSSSSSCCCCCCEEEEEETTTSCCCHHHHHHHHTCSCTTBCTTCEEEEEECCSSSHHHHHHHHH
T ss_pred ccChHHEEEEEEECCCCCCCCcCCCcceEEEEEEcccccCCHHHHHHHHHHhccccccCCcEEEEECCcCCHHHHHHHHH
Confidence 356789999999999999999999999999999 88 88 999999999 999999
Q ss_pred hhCC
Q 045445 81 QILP 84 (128)
Q Consensus 81 ~~L~ 84 (128)
++|.
T Consensus 89 ~rL~ 92 (108)
T 2jva_A 89 LRLS 92 (108)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 9986
No 10
>4dh9_Y YAEJ; ribosome, YAEJ, ribosome stalling, ribosome rescue, rescue F alternative rescue factor, ARFB, release factor, rescue of ribosomes; 3.20A {Escherichia coli} PDB: 2jy9_A
Probab=99.80 E-value=1.2e-20 Score=141.87 Aligned_cols=55 Identities=27% Similarity=0.409 Sum_probs=51.9
Q ss_pred cccCceeEEEEeecCCCCcccccccccEEEE------eeCC------------------ceEEEeeccC----ChhhHhh
Q 045445 30 EQFRECEMDTYKSSGPGGQHRNKRESAVRLK------HVPT------------------ASSVNLDAYL----PPPQLLQ 81 (128)
Q Consensus 30 ~~~~dl~~~~~RssGpGGQ~vNkt~saV~l~------H~Pt------------------Gi~v~~~~~R----Nr~~A~~ 81 (128)
+.++||+|+|+|||||||||||||+|+|+|+ |+|+ +|+|+|+++| ||+.|++
T Consensus 10 I~~~el~~~~~RssGpGGQnVNKv~SaV~L~~~~~~s~lp~~~k~rL~~~~~~rit~~G~ivv~~q~~RSQ~~Nr~~A~~ 89 (140)
T 4dh9_Y 10 IPDGELEITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASHHLISSDGVIVIKAQEYRSQELNREAALA 89 (140)
T ss_dssp CCTTCSEEEEECCCSSSSHHHHTTCCCEEEEECCSSSSSCSHHHHHHHSCCCTTSCSSCCCCEEECCCSSHHHHHHHHHH
T ss_pred cChHHeEEEEEECCCCCCCccccccceEEEEEecccccCCHHHHHHHHHHhccccccCCcEEEEEcCCcCHHHHHHHHHH
Confidence 5779999999999999999999999999999 6998 5999999999 9999999
Q ss_pred hCC
Q 045445 82 ILP 84 (128)
Q Consensus 82 ~L~ 84 (128)
+|.
T Consensus 90 rL~ 92 (140)
T 4dh9_Y 90 RLV 92 (140)
T ss_dssp HHH
T ss_pred HHH
Confidence 987
No 11
>3e7l_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; 2.25A {Aquifex aeolicus} PDB: 4fth_A
Probab=84.49 E-value=0.73 Score=28.54 Aligned_cols=22 Identities=5% Similarity=0.072 Sum_probs=20.4
Q ss_pred hhHHHHHHcCCChHHHHHHccC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.+...|..++|+.+.||+.||+
T Consensus 23 ~i~~aL~~~~gn~~~aA~~LGi 44 (63)
T 3e7l_A 23 FIEEKLREYDYDLKRTAEEIGI 44 (63)
T ss_dssp HHHHHHHHTTTCHHHHHHHHTC
T ss_pred HHHHHHHHhCCCHHHHHHHHCc
Confidence 6788999999999999999997
No 12
>1umq_A Photosynthetic apparatus regulatory protein; DNA-binding protein, response regulator, DNA binding domain, helix-turn-helix; NMR {Rhodobacter sphaeroides} SCOP: a.4.1.12
Probab=79.50 E-value=1.3 Score=29.56 Aligned_cols=23 Identities=22% Similarity=0.258 Sum_probs=20.7
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+...|..++|+.+.||+.||+.
T Consensus 45 ~I~~aL~~~~GN~s~AA~~LGIS 67 (81)
T 1umq_A 45 HIQRIYEMCDRNVSETARRLNMH 67 (81)
T ss_dssp HHHHHHHHTTSCHHHHHHHHTSC
T ss_pred HHHHHHHHhCCCHHHHHHHhCCC
Confidence 56789999999999999999973
No 13
>1ntc_A Protein (nitrogen regulation protein (NTRC)); helix-turn-helix, FIS, four-helix bundle, transcription regulation; NMR {Salmonella typhimurium} SCOP: a.4.1.12
Probab=76.09 E-value=1.6 Score=28.83 Aligned_cols=23 Identities=26% Similarity=0.264 Sum_probs=20.7
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+...|..++|+.+.||+.||+.
T Consensus 55 ~i~~aL~~~~gn~~~aA~~LGIs 77 (91)
T 1ntc_A 55 LLTTALRHTQGHKQEAARLLGWG 77 (91)
T ss_dssp HHHHHHHHTTTCTTHHHHHTTCC
T ss_pred HHHHHHHHhCCCHHHHHHHHCcC
Confidence 67889999999999999999973
No 14
>1eto_A FIS, factor for inversion stimulation; transcriptional activation region, DNA-binding protein, transcription activator; 1.90A {Escherichia coli} SCOP: a.4.1.12 PDB: 1etq_A 1ety_A 1fia_A 3fis_A 3iv5_A* 3jr9_A* 3jra_A* 3jrb_A* 3jrc_A* 3jrd_A* 3jre_A* 3jrf_A* 3jrg_A* 3jrh_A* 3jri_A* 1f36_A 1etv_A 1etk_A 1etx_A 1fip_A ...
Probab=72.87 E-value=2.5 Score=28.87 Aligned_cols=23 Identities=17% Similarity=0.114 Sum_probs=20.5
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+...|..++|+.+.||+.||+.
T Consensus 62 ~I~~aL~~~~gn~~~AA~~LGIs 84 (98)
T 1eto_A 62 LLDMVMQYTLGNQTRAALMMGIN 84 (98)
T ss_dssp HHHHHHHHTTTCHHHHHHHHTSC
T ss_pred HHHHHHHHhCCCHHHHHHHhCCC
Confidence 56788999999999999999973
No 15
>1g2h_A Transcriptional regulatory protein TYRR homolog; protein structure, , DNA-binding domain, helix- turn-helix motif; NMR {Haemophilus influenzae} SCOP: a.4.1.12
Probab=71.05 E-value=3.2 Score=25.52 Aligned_cols=22 Identities=18% Similarity=0.019 Sum_probs=19.5
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+.+.|..+ |+.+.||+.||+.
T Consensus 25 ~I~~aL~~~-gn~~~aA~~LGIs 46 (61)
T 1g2h_A 25 VLKLFYAEY-PSTRKLAQRLGVS 46 (61)
T ss_dssp HHHHHHHHS-CSHHHHHHHTTSC
T ss_pred HHHHHHHHh-CCHHHHHHHhCCC
Confidence 678889999 9999999999973
No 16
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure, structural genomics, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: a.4.1.19
Probab=45.01 E-value=9.4 Score=24.57 Aligned_cols=29 Identities=17% Similarity=0.218 Sum_probs=22.6
Q ss_pred CCCCCCh--hhHHHHHHc-CCChHHHHHHccC
Q 045445 99 RPNNPKF--ALLDLIFAV-EGSVSEAAKFLSL 127 (128)
Q Consensus 99 rtyn~~f--~~lD~~~~~-~g~~~~aa~~l~l 127 (128)
+.|-++| .++..+... +.+++++|+.+|+
T Consensus 4 ~~ys~e~k~~~v~~~~~~~g~s~~~ia~~~gI 35 (97)
T 2jn6_A 4 KTYSEEFKRDAVALYENSDGASLQQIANDLGI 35 (97)
T ss_dssp CCCCHHHHHHHHHHHTTGGGSCHHHHHHHHTS
T ss_pred CCCCHHHHHHHHHHHHHcCCChHHHHHHHHCc
Confidence 5677777 566666555 8899999999997
No 17
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster}
Probab=41.99 E-value=16 Score=21.69 Aligned_cols=28 Identities=18% Similarity=0.273 Sum_probs=20.9
Q ss_pred CCCCCCh--hhHHHHHHcCCC----hHHHHHHccC
Q 045445 99 RPNNPKF--ALLDLIFAVEGS----VSEAAKFLSL 127 (128)
Q Consensus 99 rtyn~~f--~~lD~~~~~~g~----~~~aa~~l~l 127 (128)
+.|-++| .+++++. .+.+ ++++|..||+
T Consensus 4 ~~ys~efK~~~~~~~~-~g~s~~~~~~~vA~~~gI 37 (59)
T 2glo_A 4 RIFTPHFKLQVLESYR-NDNDCKGNQRATARKYNI 37 (59)
T ss_dssp CCCCHHHHHHHHHHHH-HCTTTTTCHHHHHHHTTS
T ss_pred CcCCHHHHHHHHHHHH-cCCCcchHHHHHHHHHCc
Confidence 5677888 5566654 4567 9999999997
No 18
>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}
Probab=41.08 E-value=16 Score=28.47 Aligned_cols=23 Identities=26% Similarity=0.361 Sum_probs=20.4
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+...|..++|+.+.||+.||+.
T Consensus 272 ~i~~~l~~~~gn~~~aA~~Lgi~ 294 (304)
T 1ojl_A 272 VILAALEKTGGNKTEAARQLGIT 294 (304)
T ss_dssp HHHHHHHTTTTCHHHHHHHHTSC
T ss_pred HHHHHHHHcCCCHHHHHHHHCcC
Confidence 56788999999999999999973
No 19
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster}
Probab=39.70 E-value=16 Score=23.32 Aligned_cols=29 Identities=17% Similarity=0.196 Sum_probs=22.3
Q ss_pred CCCCCCCh--hhHHHHHHcCCChHHHHHHccC
Q 045445 98 IRPNNPKF--ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 98 Irtyn~~f--~~lD~~~~~~g~~~~aa~~l~l 127 (128)
-+.|.++| .++.++ ..+.+++++|+.||+
T Consensus 20 ~~~ys~e~k~~~v~~~-~~g~s~~~iA~~~gI 50 (87)
T 2elh_A 20 LRSLTPRDKIHAIQRI-HDGESKASVARDIGV 50 (87)
T ss_dssp CSSCCHHHHHHHHHHH-HHTCCHHHHHHHHTC
T ss_pred CCCCCHHHHHHHHHHH-HCCCCHHHHHHHHCc
Confidence 34677777 667766 567899999999997
No 20
>2pij_A Prophage PFL 6 CRO; transcription factor, helix-turn-helix, structural evolution, transcription; 1.70A {Pseudomonas fluorescens}
Probab=35.73 E-value=27 Score=20.42 Aligned_cols=20 Identities=20% Similarity=0.092 Sum_probs=16.5
Q ss_pred hHHHHHHcCCChHHHHHHccC
Q 045445 107 LLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 107 ~lD~~~~~~g~~~~aa~~l~l 127 (128)
+.+++...+ +..++|+.||+
T Consensus 6 l~~~~~~~g-s~~~~A~~lgi 25 (67)
T 2pij_A 6 LSKYLEEHG-TQSALAAALGV 25 (67)
T ss_dssp HHHHHHHTC-CHHHHHHHHTS
T ss_pred HHHHHHHcC-CHHHHHHHHCc
Confidence 456677777 99999999997
No 21
>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C
Probab=35.48 E-value=46 Score=17.86 Aligned_cols=21 Identities=10% Similarity=0.140 Sum_probs=16.4
Q ss_pred hhHHHHHHcCCChHHHHHHccC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.++.++ ..+.+++++|+.||+
T Consensus 13 ~i~~l~-~~g~s~~~ia~~lgv 33 (52)
T 1jko_C 13 QISRLL-EKGHPRQQLAIIFGI 33 (52)
T ss_dssp HHHHHH-HTTCCHHHHHHTTSC
T ss_pred HHHHHH-HcCCCHHHHHHHHCC
Confidence 556654 467899999999996
No 22
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium}
Probab=34.72 E-value=28 Score=20.00 Aligned_cols=22 Identities=14% Similarity=0.079 Sum_probs=18.0
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+|.+ ...|.+.+++|+.||+.
T Consensus 5 ~vl~l-~~~g~s~~eIA~~l~is 26 (61)
T 2jpc_A 5 QVLKL-IDEGYTNHGISEKLHIS 26 (61)
T ss_dssp HHHHH-HHTSCCSHHHHHHTCSC
T ss_pred HHHHH-HHcCCCHHHHHHHhCCC
Confidence 46666 57899999999999973
No 23
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2
Probab=32.40 E-value=31 Score=18.12 Aligned_cols=21 Identities=19% Similarity=0.075 Sum_probs=16.1
Q ss_pred hhHHHHHHcCCChHHHHHHccC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.++.+ ...|.+++++|+.||+
T Consensus 13 ~i~~~-~~~g~s~~~IA~~lgi 33 (51)
T 1tc3_C 13 QLDVM-KLLNVSLHEMSRKISR 33 (51)
T ss_dssp HHHHH-HHTTCCHHHHHHHHTC
T ss_pred HHHHH-HHcCCCHHHHHHHHCc
Confidence 44544 4678899999999997
No 24
>1n4k_A Inositol 1,4,5-trisphosphate receptor type 1; IP3 receptor, IP3-binding core, calcium channel,protein- ligand complex, B-trefoil fold; HET: I3P; 2.20A {Mus musculus} SCOP: a.118.22.1 b.42.6.1
Probab=32.19 E-value=57 Score=26.85 Aligned_cols=21 Identities=24% Similarity=0.313 Sum_probs=14.3
Q ss_pred ccccEEEEeeCCceEEEeecc
Q 045445 53 RESAVRLKHVPTASSVNLDAY 73 (128)
Q Consensus 53 t~saV~l~H~PtGi~v~~~~~ 73 (128)
..+.+||+|+.||--+.+++.
T Consensus 76 ~~~~fRLrH~~Tg~yL~~~~~ 96 (381)
T 1n4k_A 76 WNSLFRFKHLATGHYLAAEVD 96 (381)
T ss_dssp ---CEEEEETTTCCEEEEEEC
T ss_pred eCCeEEEEECCCCceeeEEec
Confidence 669999999999966655543
No 25
>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1vih_A
Probab=30.03 E-value=13 Score=23.34 Aligned_cols=22 Identities=23% Similarity=0.450 Sum_probs=17.7
Q ss_pred CCCCccccc--ccccEEEEeeCCc
Q 045445 44 GPGGQHRNK--RESAVRLKHVPTA 65 (128)
Q Consensus 44 GpGGQ~vNk--t~saV~l~H~PtG 65 (128)
||||.++++ -++.|+|...+.|
T Consensus 21 G~gG~~I~~I~e~tg~~I~i~~~g 44 (71)
T 1vig_A 21 GKSGANINRIKDQYKVSVRIPPDS 44 (71)
T ss_dssp CSSCCHHHHHHHHTCCEEECCCCC
T ss_pred CCCCccHHHHHHHHCCEEEECCCC
Confidence 899999994 4688888877766
No 26
>1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2
Probab=27.73 E-value=41 Score=19.78 Aligned_cols=22 Identities=18% Similarity=0.280 Sum_probs=18.6
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+|.++ ..|.+++++|+.||+.
T Consensus 18 ~il~~~-~~g~s~~eIA~~l~is 39 (74)
T 1fse_A 18 EVFELL-VQDKTTKEIASELFIS 39 (74)
T ss_dssp HHHHHH-TTTCCHHHHHHHHTSC
T ss_pred HHHHHH-HcCCCHHHHHHHHCCC
Confidence 777775 8889999999999973
No 27
>2ftc_B Mitochondrial ribosomal protein L2; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_B
Probab=27.59 E-value=32 Score=25.10 Aligned_cols=27 Identities=15% Similarity=0.308 Sum_probs=22.7
Q ss_pred EEEeecCCCCcccccccccEEEEeeCCc
Q 045445 38 DTYKSSGPGGQHRNKRESAVRLKHVPTA 65 (128)
Q Consensus 38 ~~~RssGpGGQ~vNkt~saV~l~H~PtG 65 (128)
++.||+|--.|-+.|....++|+ +|+|
T Consensus 80 ~laRsAGt~a~ii~ke~~~~~vr-LPSG 106 (136)
T 2ftc_B 80 QYIRAAGTCGVLLRKVNGTAIIQ-LPSK 106 (136)
T ss_pred EEEEeCCCeEEEEEecCCEEEEE-CCCC
Confidence 58999999999999977766665 7998
No 28
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis}
Probab=26.28 E-value=54 Score=19.03 Aligned_cols=23 Identities=22% Similarity=-0.005 Sum_probs=19.9
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+|-+....|.+++++|+.||+.
T Consensus 22 ~il~l~~~~g~s~~eIA~~lgis 44 (70)
T 2o8x_A 22 EALLLTQLLGLSYADAAAVCGCP 44 (70)
T ss_dssp HHHHHHHTSCCCHHHHHHHHTSC
T ss_pred HHHHHHHHcCCCHHHHHHHHCcC
Confidence 67777788899999999999973
No 29
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis}
Probab=26.14 E-value=47 Score=21.01 Aligned_cols=23 Identities=17% Similarity=0.121 Sum_probs=19.8
Q ss_pred hhHHHHHHcCCChHHHHHHccCC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSLL 128 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l~ 128 (128)
.+|-+....|.+++++|+.||+.
T Consensus 44 ~vl~l~~~~g~s~~eIA~~lgis 66 (92)
T 3hug_A 44 AVIQRSYYRGWSTAQIATDLGIA 66 (92)
T ss_dssp HHHHHHHTSCCCHHHHHHHHTSC
T ss_pred HHHHHHHHcCCCHHHHHHHHCcC
Confidence 67777788899999999999973
No 30
>3c57_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A
Probab=24.56 E-value=52 Score=21.20 Aligned_cols=21 Identities=24% Similarity=0.216 Sum_probs=18.8
Q ss_pred hhHHHHHHcCCChHHHHHHccC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.+|.++ ..|.+.+++|+.||+
T Consensus 34 ~vl~l~-~~g~s~~eIA~~l~i 54 (95)
T 3c57_A 34 TLLGLL-SEGLTNKQIADRMFL 54 (95)
T ss_dssp HHHHHH-HTTCCHHHHHHHHTC
T ss_pred HHHHHH-HcCCCHHHHHHHHCc
Confidence 778887 899999999999997
No 31
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Probab=24.12 E-value=50 Score=20.68 Aligned_cols=21 Identities=29% Similarity=0.246 Sum_probs=18.1
Q ss_pred hhHHHHHHcCCChHHHHHHccC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.+|.++ ..|.+.+++|+.||+
T Consensus 28 ~vl~l~-~~g~s~~eIA~~l~i 48 (82)
T 1je8_A 28 DILKLI-AQGLPNKMIARRLDI 48 (82)
T ss_dssp HHHHHH-TTTCCHHHHHHHHTS
T ss_pred HHHHHH-HcCCCHHHHHHHHCc
Confidence 677775 789999999999997
No 32
>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4
Probab=24.06 E-value=32 Score=23.23 Aligned_cols=13 Identities=23% Similarity=0.483 Sum_probs=11.4
Q ss_pred ccEEEEeeCCceE
Q 045445 55 SAVRLKHVPTASS 67 (128)
Q Consensus 55 saV~l~H~PtGi~ 67 (128)
++|.|+|+|++++
T Consensus 2 ~KvVIRrLPP~Lt 14 (91)
T 1uw4_A 2 SKVVIRRLPPTLT 14 (91)
T ss_dssp CEEEEEEECTTCC
T ss_pred cEEEEeCCCCCCC
Confidence 5899999999975
No 33
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5
Probab=23.81 E-value=46 Score=21.17 Aligned_cols=27 Identities=11% Similarity=0.124 Sum_probs=20.3
Q ss_pred CCCCCh--hhHHHHHHcCCChHHHHHHccC
Q 045445 100 PNNPKF--ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 100 tyn~~f--~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.|.+++ .++.++ ..|.+++++|+.||+
T Consensus 17 ~~s~~~r~~i~~~~-~~g~s~~~ia~~lgi 45 (128)
T 1pdn_C 17 PLPNNIRLKIVEMA-ADGIRPCVISRQLRV 45 (128)
T ss_dssp CCCHHHHHHHHHHH-HTTCCHHHHHHHHTC
T ss_pred cCCHHHHHHHHHHH-HcCCCHHHHHHHHCc
Confidence 455555 566665 478999999999986
No 34
>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}
Probab=21.62 E-value=43 Score=23.08 Aligned_cols=21 Identities=19% Similarity=0.525 Sum_probs=16.4
Q ss_pred CcccccccccEEEEeeCCceE
Q 045445 47 GQHRNKRESAVRLKHVPTASS 67 (128)
Q Consensus 47 GQ~vNkt~saV~l~H~PtGi~ 67 (128)
|-|..--+-+|.|+++|+|++
T Consensus 2 ~~~~~~~~~KvVIRrLPP~Lt 22 (97)
T 2l08_A 2 GHHHHHHSHMVVIRRLPPGLT 22 (97)
T ss_dssp CCCCCCCCCCEEEECCCSCSC
T ss_pred CccccccceeEEEeCCCCCCC
Confidence 445556677999999999975
No 35
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti}
Probab=21.13 E-value=68 Score=19.15 Aligned_cols=21 Identities=14% Similarity=0.063 Sum_probs=17.7
Q ss_pred hhHHHHHHcCCChHHHHHHccC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.+|.++ ..|.+.+++|+.||+
T Consensus 23 ~vl~l~-~~g~s~~eIA~~l~i 43 (79)
T 1x3u_A 23 QVLSAV-VAGLPNKSIAYDLDI 43 (79)
T ss_dssp HHHHHH-TTTCCHHHHHHHTTS
T ss_pred HHHHHH-HcCCCHHHHHHHHCc
Confidence 567664 789999999999987
No 36
>3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A
Probab=21.03 E-value=69 Score=20.72 Aligned_cols=21 Identities=24% Similarity=0.096 Sum_probs=18.4
Q ss_pred hhHHHHHHcCCChHHHHHHccC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.+|.++. .|.+.+++|+.||+
T Consensus 36 ~Vl~l~~-~G~s~~eIA~~L~i 56 (90)
T 3ulq_B 36 LILQEVE-KGFTNQEIADALHL 56 (90)
T ss_dssp HHHHHHH-TTCCHHHHHHHHTC
T ss_pred HHHHHHH-cCCCHHHHHHHHCc
Confidence 7787776 89999999999997
No 37
>3onq_A Regulator of polyketide synthase expression; structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Bifidobacterium adolescentis}
Probab=20.49 E-value=64 Score=24.95 Aligned_cols=22 Identities=18% Similarity=0.209 Sum_probs=19.0
Q ss_pred hhHHHHHHcCCChHHHHHHccC
Q 045445 106 ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 106 ~~lD~~~~~~g~~~~aa~~l~l 127 (128)
..|.....++|++++||+.|++
T Consensus 200 ~TL~~yl~~~~~~~~tA~~L~i 221 (262)
T 3onq_A 200 LTVSTFLKYGSSLENTAKELNV 221 (262)
T ss_dssp HHHHHHHHTTTCHHHHHHHHTS
T ss_pred HHHHHHHHcCCCHHHHHHHhCC
Confidence 5577778999999999999976
No 38
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Probab=20.40 E-value=56 Score=22.08 Aligned_cols=27 Identities=11% Similarity=0.147 Sum_probs=20.2
Q ss_pred CCCCCh--hhHHHHHHcCCChHHHHHHccC
Q 045445 100 PNNPKF--ALLDLIFAVEGSVSEAAKFLSL 127 (128)
Q Consensus 100 tyn~~f--~~lD~~~~~~g~~~~aa~~l~l 127 (128)
.|..++ .++.++ ..|.+++++|+.||+
T Consensus 32 ~~s~e~r~~iv~~~-~~G~s~~~iA~~lgi 60 (149)
T 1k78_A 32 PLPDVVRQRIVELA-HQGVRPCDISRQLRV 60 (149)
T ss_dssp CCCHHHHHHHHHHH-HTTCCHHHHHHHHTC
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHHCc
Confidence 455555 566665 578999999999996
Done!