RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18137
(320 letters)
>4din_B CAMP-dependent protein kinase type I-beta regulat subunit,
CAMP-dependent protein kinase catalytic subunit A;
isoform diversity; HET: TPO SEP ATP; 3.70A {Homo
sapiens}
Length = 381
Score = 356 bits (914), Expect = e-122
Identities = 230/316 (72%), Positives = 268/316 (84%)
Query: 5 QAHDAKLKATSPEETEDLSPLPSQGQQSARRRGGISAEPVSEEDATSYVKKVVPKDYKTM 64
A + + E P+ ++ RRRGG+SAE +EEDA SYV+KV+PKDYKTM
Sbjct: 66 LARQKSNSQSDSHDEEVSPTPPNPVVKARRRRGGVSAEVYTEEDAVSYVRKVIPKDYKTM 125
Query: 65 AALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVY 124
AL+KAI+KNVLF+HLD+N RSDIFDAMFPV + GE++I QG+EGDNFYV+DQGEV+VY
Sbjct: 126 TALAKAISKNVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQGNEGDNFYVVDQGEVDVY 185
Query: 125 VNNELVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKL 184
VN E VT++ EGGSFGELALIYGTPRAATV+AKTD+KLWG+DRDSYRRILMGST+RKRK+
Sbjct: 186 VNGEWVTNISEGGSFGELALIYGTPRAATVKAKTDLKLWGIDRDSYRRILMGSTLRKRKM 245
Query: 185 YEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQN 244
YEEFLS+VSILESLEKWERLTVAD+LEPV F+D E IV QG+PGDDFYII EGTA VLQ
Sbjct: 246 YEEFLSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVLQR 305
Query: 245 TVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLGPCADI 304
E VEVG+LGPSDYFGEIALLL+RPRAATVVA+GPLKCVKLDR RFERVLGPC++I
Sbjct: 306 RSPNEEYVEVGRLGPSDYFGEIALLLNRPRAATVVARGPLKCVKLDRPRFERVLGPCSEI 365
Query: 305 LKRNITQYNSFVSLSV 320
LKRNI +YNSF+SL+V
Sbjct: 366 LKRNIQRYNSFISLTV 381
>2qcs_B CAMP-dependent protein kinase type I-alpha regula subunit,
CAMP-dependent protein kinase, alpha-catalytic SU;
cyclic adenosine monophosphate; HET: SEP TPO ANP TAM;
2.20A {Bos taurus} PDB: 1rl3_A* 1rgs_A* 1ne6_A* 1ne4_A*
Length = 291
Score = 345 bits (886), Expect = e-120
Identities = 231/290 (79%), Positives = 264/290 (91%)
Query: 31 QSARRRGGISAEPVSEEDATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFD 90
+ RRRG ISAE +EEDA SYV+KV+PKDYKTMAAL+KAI KNVLFSHLD+N RSDIFD
Sbjct: 1 KGRRRRGAISAEVYTEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFD 60
Query: 91 AMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELVTSVGEGGSFGELALIYGTPR 150
AMFPV+ + GE++I QGDEGDNFYVIDQGE++VYVNNE TSVGEGGSFGELALIYGTPR
Sbjct: 61 AMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFGELALIYGTPR 120
Query: 151 AATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEKWERLTVADSL 210
AATV+AKT+VKLWG+DRDSYRRILMGST+RKRK+YEEFLS+VSILESL+KWERLTVAD+L
Sbjct: 121 AATVKAKTNVKLWGIDRDSYRRILMGSTLRKRKMYEEFLSKVSILESLDKWERLTVADAL 180
Query: 211 EPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVEEESPVEVGKLGPSDYFGEIALLL 270
EPV F+D + IV QG+PGD+F+II+EG+A VLQ E E VEVG+LGPSDYFGEIALL+
Sbjct: 181 EPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRSENEEFVEVGRLGPSDYFGEIALLM 240
Query: 271 DRPRAATVVAKGPLKCVKLDRARFERVLGPCADILKRNITQYNSFVSLSV 320
+RP+AATVVA+GPLKCVKLDR RFERVLGPC+DILKRNI QYNSFVSLSV
Sbjct: 241 NRPKAATVVARGPLKCVKLDRPRFERVLGPCSDILKRNIQQYNSFVSLSV 290
>3shr_A CGMP-dependent protein kinase 1; cyclic nucleotide binding domains,
cyclic nucleotide protein transferase, PKG; HET: CMP;
2.50A {Bos taurus}
Length = 299
Score = 324 bits (831), Expect = e-111
Identities = 91/291 (31%), Positives = 142/291 (48%), Gaps = 4/291 (1%)
Query: 28 QGQQSARRRGGISAEPVSEEDATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSD 87
+G G S E A + K ++ + +AI N +L+ + +
Sbjct: 2 RGSHHHHHHGMASIEGRGSMQA----FRKFTKSERSKDLIKEAILDNDFMKNLELSQIQE 57
Query: 88 IFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELVTSVGEGGSFGELALIYG 147
I D M+PV II +GD G YV++ G+VEV + ++G G FGELA++Y
Sbjct: 58 IVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFGELAILYN 117
Query: 148 TPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEKWERLTVA 207
R ATV+ +VKLW +DR ++ I+M + + K Y EFL V +SL + +A
Sbjct: 118 CTRTATVKTLVNVKLWAIDRQCFQTIMMRTGLIKHTEYMEFLKSVPTFQSLPEEILSKLA 177
Query: 208 DSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVEEESPVEVGKLGPSDYFGEIA 267
D LE +++ E I+RQG GD F+II +G V + E PV + LG D+FGE A
Sbjct: 178 DVLEETHYENGEYIIRQGARGDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDWFGEKA 237
Query: 268 LLLDRPRAATVVAKGPLKCVKLDRARFERVLGPCADILKRNITQYNSFVSL 318
L + R A V+A + C+ +DR F+ ++G D+ + +
Sbjct: 238 LQGEDVRTANVIAAEAVTCLVIDRDSFKHLIGGLDDVSNKAYEDAEAKAKY 288
Score = 136 bits (344), Expect = 3e-38
Identities = 40/163 (24%), Positives = 66/163 (40%), Gaps = 6/163 (3%)
Query: 48 DATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQG 107
D + ++ + + F L E S + D + + GE II QG
Sbjct: 136 DRQCFQTIMMRTGLIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQG 195
Query: 108 DEGDNFYVIDQGEVEVYVNNE------LVTSVGEGGSFGELALIYGTPRAATVRAKTDVK 161
GD F++I +G+V V + + ++G+G FGE AL R A V A V
Sbjct: 196 ARGDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVT 255
Query: 162 LWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEKWERL 204
+DRDS++ ++ G K YE+ ++ + L
Sbjct: 256 CLVIDRDSFKHLIGGLDDVSNKAYEDAEAKAKYEAEAAFFANL 298
>3tnp_B CAMP-dependent protein kinase type II-beta regula subunit; PKA RIIB
tetrameric holoenzyme, transferase; HET: SEP TPO; 2.30A
{Mus musculus} PDB: 3tnq_A* 1cx4_A* 2qvs_B*
Length = 416
Score = 323 bits (828), Expect = e-109
Identities = 122/327 (37%), Positives = 177/327 (54%), Gaps = 11/327 (3%)
Query: 2 FQEQAHDAKLKATSPEETEDLSPLPSQGQQSARRRGGISAEPV--SEEDATSYVKKVVPK 59
F E+ + + EE + + RR + AE EE+ + + + PK
Sbjct: 76 FAEEPMRSDSENGEEEEAAEAGAFNAPVINRFTRRASVCAEAYNPDEEEDDAESRIIHPK 135
Query: 60 DYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQG 119
L +A +LF +LD S + DAMF GE +I QGD+GDNFYVID+G
Sbjct: 136 TDDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRG 195
Query: 120 EVEVYVNNE----LVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILM 175
++YV + V + GSFGELAL+Y TP+AAT+ A + LWGLDR ++RRI++
Sbjct: 196 TFDIYVKCDGVGRCVGNYDNRGSFGELALMYNTPKAATITATSPGALWGLDRVTFRRIIV 255
Query: 176 GSTIRKRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIV 235
+ +KRK+YE F+ + L+SLE ERL V D + + D E I+ QG D F+I+
Sbjct: 256 KNNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVE 315
Query: 236 EGTALVLQN-----TVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLD 290
G + VEE VE+ + YFGE+AL+ ++PRAA+ A G +KC+ +D
Sbjct: 316 SGEVKITMKRKGKSEVEENGAVEIARCFRGQYFGELALVTNKPRAASAHAIGTVKCLAMD 375
Query: 291 RARFERVLGPCADILKRNITQYNSFVS 317
FER+LGPC +I+KRNI Y +
Sbjct: 376 VQAFERLLGPCMEIMKRNIATYEEQLV 402
Score = 118 bits (296), Expect = 2e-30
Identities = 43/159 (27%), Positives = 69/159 (43%), Gaps = 14/159 (8%)
Query: 48 DATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQG 107
D ++ + +V + K I L+ + R + D + GE II QG
Sbjct: 246 DRVTFRRIIVKNNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQG 305
Query: 108 DEGDNFYVIDQGEVEVYVNNEL-----------VTSVGEGGSFGELALIYGTPRAATVRA 156
D D+F++++ GEV++ + + + G FGELAL+ PRAA+ A
Sbjct: 306 DLADSFFIVESGEVKITMKRKGKSEVEENGAVEIARCFRGQYFGELALVTNKPRAASAHA 365
Query: 157 KTDVKLWGLDRDSYRRILMG-STIRKR--KLYEEFLSRV 192
VK +D ++ R+L I KR YEE L +
Sbjct: 366 IGTVKCLAMDVQAFERLLGPCMEIMKRNIATYEEQLVAL 404
Score = 118 bits (296), Expect = 2e-30
Identities = 48/242 (19%), Positives = 89/242 (36%), Gaps = 3/242 (1%)
Query: 77 FSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELVTSVGEG 136
F+ L + G++ G + V E +
Sbjct: 36 FTRLQQENERKGAARFGHEGRTWGDAGAAAGGGIPSKGVNFAEEPMRSDSENGEEEEAAE 95
Query: 137 GSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILE 196
+I R A+V A+ + D+ RI+ T +R +E + + +
Sbjct: 96 AGAFNAPVINRFTRRASVCAEA-YNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFK 154
Query: 197 SLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVEEESPVEVGK 256
+L+ + V D++ ++ E ++ QG GD+FY+I GT + + VG
Sbjct: 155 NLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVK--CDGVGRCVGN 212
Query: 257 LGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLGPCADILKRNITQYNSFV 316
FGE+AL+ + P+AAT+ A P LDR F R++ ++ + +
Sbjct: 213 YDNRGSFGELALMYNTPKAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYESFIESL 272
Query: 317 SL 318
Sbjct: 273 PF 274
>3of1_A CAMP-dependent protein kinase regulatory subunit; cyclic nucleotide
binding domain, evolution, PKA signaling, transfer; HET:
CMP; 2.21A {Saccharomyces cerevisiae}
Length = 246
Score = 305 bits (783), Expect = e-105
Identities = 104/250 (41%), Positives = 156/250 (62%), Gaps = 5/250 (2%)
Query: 64 MAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEV 123
+ L K+I N LF+ LD +++ + + + + G +II QGD+GD FYV+++G V+
Sbjct: 2 LQRLEKSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVDF 61
Query: 124 YVNNELVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRK 183
YVN+ V S G G SFGELAL+Y +PRAATV A +D LW LDR ++R+IL+GS+ +KR
Sbjct: 62 YVNDNKVNSSGPGSSFGELALMYNSPRAATVVATSDCLLWALDRLTFRKILLGSSFKKRL 121
Query: 184 LYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQ 243
+Y++ L + +L+SL ++R +AD+L+ +Q E I+R+G G++FY+I G V +
Sbjct: 122 MYDDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAVDVSK 181
Query: 244 NTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLGPCAD 303
+ KL DYFGE+ALL D PR ATV A K L ++ F+R+LGP D
Sbjct: 182 K-----GQGVINKLKDHDYFGEVALLNDLPRQATVTATKRTKVATLGKSGFQRLLGPAVD 236
Query: 304 ILKRNITQYN 313
+LK N +
Sbjct: 237 VLKLNDPTRH 246
Score = 102 bits (255), Expect = 7e-26
Identities = 37/138 (26%), Positives = 60/138 (43%), Gaps = 6/138 (4%)
Query: 181 KRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTAL 240
+ + E+ + + L+ + V + LE S I++QG GD FY++ +GT
Sbjct: 1 QLQRLEKSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVD 60
Query: 241 VLQNTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLGP 300
N +V GP FGE+AL+ + PRAATVVA LDR F ++L
Sbjct: 61 FYVN------DNKVNSSGPGSSFGELALMYNSPRAATVVATSDCLLWALDRLTFRKILLG 114
Query: 301 CADILKRNITQYNSFVSL 318
+ + + +
Sbjct: 115 SSFKKRLMYDDLLKSMPV 132
>3pna_A CAMP-dependent protein kinase type I-alpha regula subunit;
beta-barrel, CAMP-binding, catalytic subunit,
transferase; HET: CMP; 1.50A {Bos taurus} PDB: 3fhi_B*
3iia_A 3plq_A* 1u7e_B* 3pvb_B*
Length = 154
Score = 222 bits (568), Expect = 2e-73
Identities = 125/152 (82%), Positives = 141/152 (92%)
Query: 34 RRRGGISAEPVSEEDATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMF 93
RRRG ISAE +EEDA SYV+KV+PKDYKTMAAL+KAI KNVLFSHLD+N RSDIFDAMF
Sbjct: 3 RRRGAISAEVYTEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAMF 62
Query: 94 PVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELVTSVGEGGSFGELALIYGTPRAAT 153
PV+ + GE++I QGDEGDNFYVIDQGE++VYVNNE TSVGEGGSFGELALIYGTPRAAT
Sbjct: 63 PVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFGELALIYGTPRAAT 122
Query: 154 VRAKTDVKLWGLDRDSYRRILMGSTIRKRKLY 185
V+AKT+VKLWG+DRDSYRRILMGST+RKRK+Y
Sbjct: 123 VKAKTNVKLWGIDRDSYRRILMGSTLRKRKMY 154
Score = 131 bits (331), Expect = 6e-38
Identities = 45/152 (29%), Positives = 71/152 (46%), Gaps = 9/152 (5%)
Query: 147 GTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEKWERLTV 206
G R + A+ D SY R ++ + + + + + L+ ER +
Sbjct: 1 GRRRRGAISAEV---YTEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDI 57
Query: 207 ADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVEEESPVEVGKLGPSDYFGEI 266
D++ PVSF E +++QG GD+FY+I +G V N +G FGE+
Sbjct: 58 FDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN------NEWATSVGEGGSFGEL 111
Query: 267 ALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
AL+ PRAATV AK +K +DR + R+L
Sbjct: 112 ALIYGTPRAATVKAKTNVKLWGIDRDSYRRIL 143
>3idb_B CAMP-dependent protein kinase type II-beta regulatory subunit,
CAMP-dependent protein kinase catalytic subunit alpha;
PKA, SPR, affinity; HET: TPO SEP ANP; 1.62A {Rattus
norvegicus} PDB: 3idc_B*
Length = 161
Score = 209 bits (534), Expect = 3e-68
Identities = 68/160 (42%), Positives = 94/160 (58%), Gaps = 6/160 (3%)
Query: 35 RRGGISAEPV--SEEDATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAM 92
RR + AE EE+ + + + PK L +A +LF +LD S + DAM
Sbjct: 2 RRASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDAM 61
Query: 93 FPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE----LVTSVGEGGSFGELALIYGT 148
F GE +I QGD+GDNFYVID+G ++YV + V + GSFGELAL+Y T
Sbjct: 62 FEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYNT 121
Query: 149 PRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEF 188
PRAAT+ A + LWGLDR ++RRI++ + +KRK+YE F
Sbjct: 122 PRAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYESF 161
Score = 132 bits (335), Expect = 2e-38
Identities = 42/149 (28%), Positives = 71/149 (47%), Gaps = 3/149 (2%)
Query: 150 RAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEKWERLTVADS 209
R A+V A+ + D+ RI+ T +R +E + + ++L+ + V D+
Sbjct: 2 RRASVCAEA-YNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDA 60
Query: 210 LEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVEEESPVEVGKLGPSDYFGEIALL 269
+ ++ E ++ QG GD+FY+I GT + + VG FGE+AL+
Sbjct: 61 MFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKC--DGVGRCVGNYDNRGSFGELALM 118
Query: 270 LDRPRAATVVAKGPLKCVKLDRARFERVL 298
+ PRAAT+ A P LDR F R++
Sbjct: 119 YNTPRAATITATSPGALWGLDRVTFRRII 147
>3ocp_A PRKG1 protein; serine/threonine kinase, TF2I and IRAG, transferase;
HET: CMP; 2.49A {Homo sapiens} PDB: 3od0_A* 3ogj_A*
Length = 139
Score = 197 bits (503), Expect = 7e-64
Identities = 44/137 (32%), Positives = 71/137 (51%)
Query: 49 ATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGD 108
+ PK ++ + +AI N +L+ + +I D M+PV II +GD
Sbjct: 3 GSHVTLPFYPKSPQSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGD 62
Query: 109 EGDNFYVIDQGEVEVYVNNELVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRD 168
G YV++ G+VEV + ++G G FGELA++Y R ATV+ +VKLW +DR
Sbjct: 63 VGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFGELAILYNCTRTATVKTLVNVKLWAIDRQ 122
Query: 169 SYRRILMGSTIRKRKLY 185
++ I+M + + K Y
Sbjct: 123 CFQTIMMRTGLIKHTEY 139
Score = 114 bits (287), Expect = 1e-31
Identities = 29/121 (23%), Positives = 59/121 (48%), Gaps = 6/121 (4%)
Query: 178 TIRKRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEG 237
+ + + L +E + +++LE + + D + PV + I+++G G Y++ +G
Sbjct: 14 SPQSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDG 73
Query: 238 TALVLQNTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERV 297
V + V++ +GP FGE+A+L + R ATV +K +DR F+ +
Sbjct: 74 KVEVTKE------GVKLCTMGPGKVFGELAILYNCTRTATVKTLVNVKLWAIDRQCFQTI 127
Query: 298 L 298
+
Sbjct: 128 M 128
>1o7f_A CAMP-dependent RAP1 guanine-nucleotide exchange factor; EPAC2,
CAMP-GEF2, campb binding doamin, regulation; 2.5A {Mus
musculus} SCOP: a.4.5.31 b.82.3.2 b.82.3.2
Length = 469
Score = 152 bits (384), Expect = 1e-42
Identities = 37/159 (23%), Positives = 69/159 (43%), Gaps = 4/159 (2%)
Query: 43 PVSEEDATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAM-FPVNCLPGE 101
K + + + + SHL + ++ + F + G
Sbjct: 311 GPDAHMRMILRKPPGQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGT 370
Query: 102 SIITQGDEGDNFYVIDQGEVEVYVNNE-LVTSVGEGGSFGELALIYGTPRAATVRAKTD- 159
+ QG+EG ++Y+I +G V V + + +V ++ EG FG+LAL+ PRAA++ + D
Sbjct: 371 VLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVNDAPRAASIVLREDN 430
Query: 160 VKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESL 198
+D++ + RIL +L E V +LE +
Sbjct: 431 CHFLRVDKEDFNRILRDVEANTVRLKEHD-QDVLVLEKV 468
Score = 123 bits (309), Expect = 4e-32
Identities = 29/167 (17%), Positives = 65/167 (38%), Gaps = 8/167 (4%)
Query: 44 VSEEDATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESI 103
S E K+ + + + + + + F N I + N G ++
Sbjct: 17 SSAEWIACLDKRPLERSSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITL 76
Query: 104 ITQGDEGDNFYVIDQGEVEVYVNNE-------LVTSVGEGGSFGELALIYGTPRAATVRA 156
QGD G N+Y + G ++V V+ + ++G G +FGE +++ TPR AT+
Sbjct: 77 FRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE-SILDNTPRHATIVT 135
Query: 157 KTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEKWER 203
+ +L ++++ ++ + L + + ++
Sbjct: 136 RESSELLRIEQEDFKALWEKYRQYMAGLLAPPYGVMETGSNNDRIPD 182
Score = 109 bits (272), Expect = 5e-27
Identities = 42/223 (18%), Positives = 81/223 (36%), Gaps = 12/223 (5%)
Query: 87 DIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELVTSVGEGGSFGELALIY 146
A+ L + ++ D+ +F Y + + E
Sbjct: 242 SRTQAVGMWQVLLEDGVLNHVDQERHFQDKYL----FYRFLDDEREDAPLPTEEEKKECD 297
Query: 147 GTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEKWERLTV 206
+ T+ + + R R+ T+ ++ + L + L L + +
Sbjct: 298 EELQD-TMLLLSQMGPDAHMRMILRKPPGQRTVDDLEIIYDELLHIKALSHLSTTVKREL 356
Query: 207 ADSLEPVSFQDKEAIV-RQGQPGDDFYIIVEGTALVLQNTVEEESPVEVGKLGPSDYFGE 265
A L S ++ QG+ G +YII++G+ V+ V L D FG+
Sbjct: 357 AGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIY-----GKGVVCTLHEGDDFGK 411
Query: 266 IALLLDRPRAATVVAKGP-LKCVKLDRARFERVLGPCADILKR 307
+AL+ D PRAA++V + +++D+ F R+L R
Sbjct: 412 LALVNDAPRAASIVLREDNCHFLRVDKEDFNRILRDVEANTVR 454
Score = 101 bits (253), Expect = 2e-24
Identities = 28/153 (18%), Positives = 56/153 (36%), Gaps = 9/153 (5%)
Query: 147 GTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRK----RKLYEEFLSRVSILESLEKWE 202
G+P V A + L + + + L V E
Sbjct: 1 GSPGIPMVAAHA---AHSQSSAEWIACLDKRPLERSSEDVDIIFTRLKGVKAFEKFHPNL 57
Query: 203 RLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVE-EESPVEVGKLGPSD 261
+ + + + RQG G ++Y ++ G+ V + + V + LG
Sbjct: 58 LRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGT 117
Query: 262 YFGEIALLLDRPRAATVVAKGPLKCVKLDRARF 294
FGE ++L + PR AT+V + + +++++ F
Sbjct: 118 AFGE-SILDNTPRHATIVTRESSELLRIEQEDF 149
>1vp6_A CNBD, cyclic-nucleotide binding domain of mesorhizobium LOTI CNG
potassium channel; dimer helical bundle beta barrel core
with cyclic AMP bound; HET: CMP; 1.70A {Mesorhizobium
loti} SCOP: b.82.3.2 PDB: 3cl1_A* 2k0g_A* 2kxl_A 3clp_A*
1u12_A 3co2_A
Length = 138
Score = 136 bits (345), Expect = 3e-40
Identities = 33/131 (25%), Positives = 58/131 (44%), Gaps = 10/131 (7%)
Query: 179 IRKRKLYE--EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVE 236
+R+ + ++ V + + L + + +L + I R G+PGD + +VE
Sbjct: 1 VRRGDFVRNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVE 60
Query: 237 GTALVLQNTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFER 296
G+ V E LGP +FGE+AL+ PR+ATV A + + L A F+
Sbjct: 61 GSVSVATPNPVE--------LGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQM 112
Query: 297 VLGPCADILKR 307
+ +I +
Sbjct: 113 LCSSSPEIAEI 123
Score = 120 bits (303), Expect = 5e-34
Identities = 38/127 (29%), Positives = 52/127 (40%), Gaps = 2/127 (1%)
Query: 71 IAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELV 130
+A LF L +I A+ G I G+ GD + + +G V V N
Sbjct: 13 VAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNP-- 70
Query: 131 TSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLS 190
+G G FGE+ALI G PR+ATV A T V L L ++ + S + L
Sbjct: 71 VELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEIFRKTALE 130
Query: 191 RVSILES 197
R S
Sbjct: 131 RRGAAAS 137
>2d93_A RAP guanine nucleotide exchange factor 6; CNMP_binding domain, PDZ
domain containing guanine nucleotide exchange factor 2,
PDZ-GEF2, RA-GEF-2; NMR {Homo sapiens}
Length = 134
Score = 130 bits (329), Expect = 6e-38
Identities = 30/113 (26%), Positives = 51/113 (45%), Gaps = 2/113 (1%)
Query: 64 MAALSKAIAKNVLFSHLDENTRSDIFDAM-FPVNCLPGESIITQGDEGDNFYVIDQGEVE 122
+ L + + + F+++ + R ++ M F V G I+ G E D++YVI G VE
Sbjct: 11 IEQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVILNGTVE 70
Query: 123 VYVNNELVTSVGEGGSFGELALIYGTPRAATVRAKTD-VKLWGLDRDSYRRIL 174
+ + V ++ G SFG + VR K D + + + Y RIL
Sbjct: 71 ISHPDGKVENLFMGNSFGITPTLDKQYMHGIVRTKVDDCQFVCIAQQDYWRIL 123
Score = 103 bits (259), Expect = 1e-27
Identities = 22/119 (18%), Positives = 42/119 (35%), Gaps = 8/119 (6%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSF-QDKEAIVRQGQPGDDFYIIVEGTALVLQNT 245
EF+ ++ ++ R + + Q I+ GQ D +Y+I+ GT +
Sbjct: 16 EFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVILNGTVEISHP- 74
Query: 246 VEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPL-KCVKLDRARFERVLGPCAD 303
+V L + FG L + V K + V + + + R+L
Sbjct: 75 -----DGKVENLFMGNSFGITPTLDKQYMHGIVRTKVDDCQFVCIAQQDYWRILNHVEK 128
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 126 bits (318), Expect = 3e-34
Identities = 32/127 (25%), Positives = 54/127 (42%), Gaps = 2/127 (1%)
Query: 175 MGSTIRKRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYII 234
M E L+ + + + +++A S++P+ + ++RQG+P F +I
Sbjct: 1 MDGIAELTGARVEDLAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLI 60
Query: 235 VEGTALVLQNTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARF 294
G+A V + + + P GEIALL D PR+ATV PL R F
Sbjct: 61 SSGSAEVSHVGDDGV--AIIARALPGMIVGEIALLRDSPRSATVTTIEPLTGWTGGRGAF 118
Query: 295 ERVLGPC 301
++
Sbjct: 119 ATMVHIP 125
Score = 121 bits (305), Expect = 3e-32
Identities = 41/224 (18%), Positives = 78/224 (34%), Gaps = 12/224 (5%)
Query: 62 KTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEV 121
+ A + +A +F + ++ P+ G+ ++ QG+ +F +I G
Sbjct: 6 ELTGARVEDLAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSA 65
Query: 122 EVYVNN----ELVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGS 177
EV ++ G GE+AL+ +PR+ATV + W R ++ ++
Sbjct: 66 EVSHVGDDGVAIIARALPGMIVGEIALLRDSPRSATVTTIEPLTGWTGGRGAFATMVHIP 125
Query: 178 TIRKRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEG 237
+ +R L + + + L PV D+E V +I G
Sbjct: 126 GVGERLLRTARQRLAAFVSPIPVRLADGTQLMLRPVLPGDRERTV-------HGHIQFSG 178
Query: 238 TALVLQN-TVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVA 280
L + + SP + L DY ++ A
Sbjct: 179 ETLYRRFMSARVPSPALMHYLSEVDYVDHFVWVVTDGSDPVADA 222
>3gyd_A CNMP-BD protein, cyclic nucleotide-binding domain; nucleotide
binding protein, structural genomics; HET: MSE CMP;
1.79A {Methylobacillus flagellatus KT}
Length = 187
Score = 112 bits (281), Expect = 4e-30
Identities = 22/118 (18%), Positives = 51/118 (43%), Gaps = 1/118 (0%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTV 246
E ++++ + E + ++ + ++ +G PGD +I+ G V+++
Sbjct: 39 EIVNKIKLFGDFSNEEVRYLCSYMQCYAAPRDCQLLTEGDPGDYLLLILTGEVNVIKDI- 97
Query: 247 EEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLGPCADI 304
+ + K+G GE++++ PR+A+ VA P L R ++L +
Sbjct: 98 PNKGIQTIAKVGAGAIIGEMSMIDGMPRSASCVASLPTDFAVLSRDALYQLLANMPKL 155
Score = 107 bits (268), Expect = 3e-28
Identities = 34/167 (20%), Positives = 60/167 (35%), Gaps = 14/167 (8%)
Query: 57 VPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVI 116
+ K + + + K LF + M ++T+GD GD +I
Sbjct: 27 LGGADKYFEEILEIVNKIKLFGDFSNEEVRYLCSYMQCYAAPRDCQLLTEGDPGDYLLLI 86
Query: 117 DQGEVEVYVNNE-----LVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYR 171
GEV V + + VG G GE+++I G PR+A+ A L RD+
Sbjct: 87 LTGEVNVIKDIPNKGIQTIAKVGAGAIIGEMSMIDGMPRSASCVASLPTDFAVLSRDALY 146
Query: 172 RILMGSTIRKRKLYEEFLSRVSILESLEKWERLTVADS-LEPVSFQD 217
++L K+ L ++ R + + P + +
Sbjct: 147 QLLANMPKLGNKVLIRLLQLLT--------ARFRESYDRILPKTLGE 185
>3mdp_A Cyclic nucleotide-binding domain (CNMP-BD) protei; structural
genomics, joint center for structural genomics; HET:
MSE; 1.90A {Geobacter metallireducens}
Length = 142
Score = 102 bits (256), Expect = 5e-27
Identities = 22/114 (19%), Positives = 43/114 (37%), Gaps = 2/114 (1%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNT- 245
E L SL + +A E SF I ++ D+ +++EG + +
Sbjct: 6 ERLRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGVELFYSNG 65
Query: 246 -VEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
+ V + P FG +L+ ++ A P++ V ++ AR +
Sbjct: 66 GAGSAANSTVCSVVPGAIFGVSSLIKPYHYTSSARATKPVRVVDINGARLREMS 119
Score = 101 bits (253), Expect = 1e-26
Identities = 26/131 (19%), Positives = 49/131 (37%), Gaps = 8/131 (6%)
Query: 71 IAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE-- 128
+ F+ L + DI + G I + + DN ++ +G VE++ +N
Sbjct: 8 LRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGVELFYSNGGA 67
Query: 129 ------LVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKR 182
V SV G FG +LI ++ RA V++ ++ R + + +
Sbjct: 68 GSAANSTVCSVVPGAIFGVSSLIKPYHYTSSARATKPVRVVDINGARLREMSENNQALGQ 127
Query: 183 KLYEEFLSRVS 193
L + V
Sbjct: 128 VLMNNVAAAVL 138
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 96.2 bits (240), Expect = 1e-24
Identities = 26/113 (23%), Positives = 52/113 (46%), Gaps = 1/113 (0%)
Query: 186 EEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNT 245
++ L R + +L+ + + S+ V+ + + +G PGD Y++ EG + + +
Sbjct: 4 DDVLRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHRTS 63
Query: 246 VEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
+ + +GPS+ GE++L PR AT A +K + L + L
Sbjct: 64 -PDGRENMLAVVGPSELIGELSLFDPGPRTATGTALTEVKLLALGHGDLQPWL 115
Score = 94.6 bits (236), Expect = 4e-24
Identities = 33/115 (28%), Positives = 58/115 (50%), Gaps = 5/115 (4%)
Query: 65 AALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVY 124
+ + +N LF+ LD+ +++ +M V G+++ +GD GD YV+ +G+V+++
Sbjct: 1 GHMDDVLRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLH 60
Query: 125 VNNE-----LVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
+ ++ VG GEL+L PR AT A T+VKL L + L
Sbjct: 61 RTSPDGRENMLAVVGPSELIGELSLFDPGPRTATGTALTEVKLLALGHGDLQPWL 115
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 94.3 bits (235), Expect = 8e-24
Identities = 29/125 (23%), Positives = 55/125 (44%), Gaps = 4/125 (3%)
Query: 176 GSTIRKRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIV 235
GS + ++++++ L + E L + + S + V+ + RQG+P FY ++
Sbjct: 1 GSHMEFQRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLI 60
Query: 236 EGTALVLQNTVE-EESPVEVGKLGPSDYFGEIALLLDRPR-AATVVAKGPLKCVKLDRAR 293
G + + T E +E +EV + F E + +D P AT A P + +
Sbjct: 61 SGCVKIYRLTPEGQEKILEV--TNERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSNKA 118
Query: 294 FERVL 298
+ R L
Sbjct: 119 YLRQL 123
Score = 85.8 bits (213), Expect = 1e-20
Identities = 25/118 (21%), Positives = 46/118 (38%), Gaps = 7/118 (5%)
Query: 64 MAALSKAIAKNV-LFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVE 122
+ + + ++ LF L ++ + VN G + QG+ FY + G V+
Sbjct: 6 FQRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVK 65
Query: 123 VYVNNE-----LVTSVGEGGSFGELALIYGTPR-AATVRAKTDVKLWGLDRDSYRRIL 174
+Y ++ E +F E + TP AT +A +L+ +Y R L
Sbjct: 66 IYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSNKAYLRQL 123
>3bpz_A Potassium/sodium hyperpolarization-activated cyclic
nucleotide-gated channel 2; CNBD, C-linker, pacemaker,
HCN, HCN2, CAP, PKA, CAMP, ION channel; HET: CMP; 1.65A
{Mus musculus} PDB: 3ffq_A 1q3e_A* 1q43_A* 1q5o_A*
3u10_A* 2q0a_A* 3etq_A* 3u11_A* 3otf_A* 3u0z_A*
Length = 202
Score = 95.1 bits (237), Expect = 1e-23
Identities = 33/126 (26%), Positives = 56/126 (44%)
Query: 71 IAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELV 130
+A LF++ D N + + + PG+ II +G G Y I G V V
Sbjct: 74 VASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKE 133
Query: 131 TSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLS 190
+ +G FGE+ L+ R A+VRA T +L+ L D++ +L + +R +
Sbjct: 134 MKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVAID 193
Query: 191 RVSILE 196
R+ +
Sbjct: 194 RLDRIG 199
Score = 86.6 bits (215), Expect = 2e-20
Identities = 29/127 (22%), Positives = 46/127 (36%), Gaps = 6/127 (4%)
Query: 181 KRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTAL 240
+ ++ + + + + + L+ FQ + I+R+G G Y I G
Sbjct: 66 VNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVS 125
Query: 241 VLQNTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLGP 300
VL + KL YFGEI LL R A+V A + L F VL
Sbjct: 126 VLTKGNK------EMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEE 179
Query: 301 CADILKR 307
+ +
Sbjct: 180 YPMMRRA 186
>4f8a_A Potassium voltage-gated channel subfamily H membe; probable
regulatory domain of potassium channel, membrane PR
transport protein; 2.20A {Mus musculus}
Length = 160
Score = 93.1 bits (232), Expect = 2e-23
Identities = 28/130 (21%), Positives = 55/130 (42%), Gaps = 2/130 (1%)
Query: 71 IAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELV 130
++ F + + V+C PG+ I G+ D+ + G +EV ++E+V
Sbjct: 29 FKEHPAFRLASDGCLRALAMEFQTVHCAPGDLIYHAGESVDSLCFVVSGSLEVIQDDEVV 88
Query: 131 TSVGEGGSFGELALIYGTP--RAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEF 188
+G+G FG++ T A VRA T L + RD+ +++L T
Sbjct: 89 AILGKGDVFGDVFWKEATLAQSCANVRALTYCDLHVIKRDALQKVLEFYTAFSHSFSRNL 148
Query: 189 LSRVSILESL 198
+ ++ + +
Sbjct: 149 ILTYNLRKRI 158
Score = 81.2 bits (201), Expect = 7e-19
Identities = 24/134 (17%), Positives = 40/134 (29%), Gaps = 11/134 (8%)
Query: 181 KRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTAL 240
L + +A + V + I G+ D +V G+
Sbjct: 21 CVHLNRKVFKEHPAFRLASDGCLRALAMEFQTVHCAPGDLIYHAGESVDSLCFVVSGSLE 80
Query: 241 VLQNTVEEESPVEVGKLGPSDYFGEIALLLDRP--RAATVVAKGPLKCVKLDRARFERVL 298
V+Q+ V LG D FG++ A V A + R ++VL
Sbjct: 81 VIQDD------EVVAILGKGDVFGDVFWKEATLAQSCANVRALTYCDLHVIKRDALQKVL 134
Query: 299 GP---CADILKRNI 309
+ RN+
Sbjct: 135 EFYTAFSHSFSRNL 148
>2ptm_A Hyperpolarization-activated (IH) channel; ION channel, cyclic
nucleotide binding domain, C-linker, CAM SPHCN1, HCN;
HET: CMP; 1.93A {Strongylocentrotus purpuratus}
Length = 198
Score = 92.3 bits (230), Expect = 1e-22
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 1/105 (0%)
Query: 71 IAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYV-NNEL 129
+A F D N + + + P + +I +G GD + I QG V++ + + +
Sbjct: 73 VASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIVDIIMSDGVI 132
Query: 130 VTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
TS+ +G FGE+ L+ R A+V+ +T L+ L + ++L
Sbjct: 133 ATSLSDGSYFGEICLLTRERRVASVKCETYCTLFSLSVQHFNQVL 177
Score = 88.1 bits (219), Expect = 5e-21
Identities = 27/118 (22%), Positives = 43/118 (36%), Gaps = 5/118 (4%)
Query: 181 KRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTAL 240
+ ++ V + V LE FQ + ++++G GD + I +G
Sbjct: 65 ANYNCRDLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIVD 124
Query: 241 VLQNTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
++ V L YFGEI LL R A+V + L F +VL
Sbjct: 125 IIM-----SDGVIATSLSDGSYFGEICLLTRERRVASVKCETYCTLFSLSVQHFNQVL 177
>1wgp_A Probable cyclic nucleotide-gated ION channel 6; cyclic nucleotide
monophosphate, CNMP, CNMP-binding, structural genomics;
NMR {Arabidopsis thaliana} SCOP: b.82.3.2
Length = 137
Score = 89.5 bits (222), Expect = 3e-22
Identities = 22/121 (18%), Positives = 43/121 (35%), Gaps = 9/121 (7%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTV 246
+ RV + E++++ + + L+P F +K +VR+G P ++ I+ G +
Sbjct: 6 SGVRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDG 65
Query: 247 EEESPVEVGKLGPSDYFGEIALLLDR---------PRAATVVAKGPLKCVKLDRARFERV 297
L D+ G+ L TV A ++ L + V
Sbjct: 66 GRSGFYNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTRTVKALTEVEAFALIADELKFV 125
Query: 298 L 298
Sbjct: 126 A 126
Score = 87.6 bits (217), Expect = 2e-21
Identities = 23/118 (19%), Positives = 44/118 (37%), Gaps = 16/118 (13%)
Query: 73 KNV-LFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNELVT 131
+ V LF ++DE I + + P ++ +GD + I +G +E + +
Sbjct: 9 RRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRS 68
Query: 132 SV------GEGGSFGELALIYG---------TPRAATVRAKTDVKLWGLDRDSYRRIL 174
EG G+ L + TV+A T+V+ + L D + +
Sbjct: 69 GFYNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTRTVKALTEVEAFALIADELKFVA 126
>3ukn_A Novel protein similar to vertebrate potassium VOL channel,
subfamily H (EAG-related)...; KCNH, ELK, ERG, CNBD,
CNBHD, C-linker, ION channel; 2.20A {Danio rerio} PDB:
3ukt_B 3ukv_B
Length = 212
Score = 90.9 bits (226), Expect = 6e-22
Identities = 31/129 (24%), Positives = 51/129 (39%), Gaps = 10/129 (7%)
Query: 67 LSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVN 126
L+K + + LF + + C PGE +I QGD Y + G +EV +
Sbjct: 73 LNKELLQLPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGSMEVLKD 132
Query: 127 NELVTSVGEGGSFGELALIYGT--PRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKL 184
N ++ +G+G G +L A V+A T L + R +L +L
Sbjct: 133 NTVLAILGKGDLIGSDSLTKEQVIKTNANVKALTYCDLQYISLKGLREVL--------RL 184
Query: 185 YEEFLSRVS 193
Y E+ +
Sbjct: 185 YPEYAQKFV 193
Score = 71.6 bits (176), Expect = 6e-15
Identities = 23/120 (19%), Positives = 44/120 (36%), Gaps = 9/120 (7%)
Query: 181 KRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTAL 240
L +E L ++ + ES + +++ ++ E ++RQG Y + G+
Sbjct: 70 AMHLNKELL-QLPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGSME 128
Query: 241 VLQNTVEEESPVEVGKLGPSDYFGEIALLLDR--PRAATVVAKGPLKCVKLDRARFERVL 298
VL++ + LG D G +L ++ A V A + VL
Sbjct: 129 VLKDN------TVLAILGKGDLIGSDSLTKEQVIKTNANVKALTYCDLQYISLKGLREVL 182
>4ev0_A Transcription regulator, CRP family; CAMP binding, winged
helix-turn-helix motif, DNA binding, transcription
activator; HET: CMP; 2.40A {Thermus thermophilus}
Length = 216
Score = 82.3 bits (204), Expect = 8e-19
Identities = 26/109 (23%), Positives = 46/109 (42%), Gaps = 5/109 (4%)
Query: 71 IAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE-- 128
+ + LF L G+ I QGD G Y++ G+V ++ +
Sbjct: 1 MKGSPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGG 60
Query: 129 ---LVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
+ +G G FGE++L+ R+A+ A D +L L R+ Y ++
Sbjct: 61 QERTLALLGPGELFGEMSLLDEGERSASAVAVEDTELLALFREDYLALI 109
Score = 79.2 bits (196), Expect = 1e-17
Identities = 23/111 (20%), Positives = 47/111 (42%), Gaps = 3/111 (2%)
Query: 189 LSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVE- 247
+ + L E + + + I QG G Y++ G + + +
Sbjct: 1 MKGSPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGG 60
Query: 248 EESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
+E + + LGP + FGE++LL + R+A+ VA + + L R + ++
Sbjct: 61 QERTLAL--LGPGELFGEMSLLDEGERSASAVAVEDTELLALFREDYLALI 109
>3e97_A Transcriptional regulator, CRP/FNR family; YP_604437.1, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE; 1.86A {Deinococcus geothermalis dsm 11300}
Length = 231
Score = 81.9 bits (203), Expect = 1e-18
Identities = 27/109 (24%), Positives = 52/109 (47%), Gaps = 5/109 (4%)
Query: 71 IAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE-- 128
+ ++ LF ++ E+ + + N P E ++ Q EG+ +++ G V V +
Sbjct: 8 LKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSRVSLGG 67
Query: 129 ---LVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
++ + G GE A++ R+A+VRA T V+ L R+ + IL
Sbjct: 68 RERVLGDIYAPGVVGETAVLAHQERSASVRALTPVRTLMLHREHFELIL 116
Score = 80.8 bits (200), Expect = 4e-18
Identities = 25/113 (22%), Positives = 51/113 (45%), Gaps = 3/113 (2%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTV 246
+ L R + +++ + + +FQ E +V Q G+ +++ G V + ++
Sbjct: 6 DDLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSRVSL 65
Query: 247 E-EESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
E + + GE A+L + R+A+V A P++ + L R FE +L
Sbjct: 66 GGRERVLGD--IYAPGVVGETAVLAHQERSASVRALTPVRTLMLHREHFELIL 116
>3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP),
dimer, inactive(APO, unliganded allostery, DNA binding,
cyclic AMP; 2.00A {Mycobacterium tuberculosis} PDB:
3i54_A* 3i59_A* 3mzh_A* 3h3u_A* 3r6s_A*
Length = 227
Score = 81.5 bits (202), Expect = 2e-18
Identities = 30/114 (26%), Positives = 56/114 (49%), Gaps = 3/114 (2%)
Query: 186 EEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNT 245
+E L+R I + +E + L+PV F + +G+PGD YII+ G + +
Sbjct: 5 DEILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRA 64
Query: 246 VE-EESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
+ E+ + + +GPSD FGE+++ PR ++ ++ V +DR +
Sbjct: 65 PDGRENLLTI--MGPSDMFGELSIFDPGPRTSSATTITEVRAVSMDRDALRSWI 116
Score = 81.5 bits (202), Expect = 2e-18
Identities = 27/115 (23%), Positives = 59/115 (51%), Gaps = 5/115 (4%)
Query: 65 AALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVY 124
+ + + +A+ +F ++ + + + + PV+ G ++ +G+ GD Y+I G+V++
Sbjct: 2 SHMDEILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIG 61
Query: 125 VNNE-----LVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
L+T +G FGEL++ PR ++ T+V+ +DRD+ R +
Sbjct: 62 RRAPDGRENLLTIMGPSDMFGELSIFDPGPRTSSATTITEVRAVSMDRDALRSWI 116
>3fx3_A Cyclic nucleotide-binding protein; helix_TURN_helix, CAMP
regulatory protein, structural genomi 2, protein
structure initiative; 2.20A {Ruegeria pomeroyi} PDB:
3h3z_A*
Length = 237
Score = 78.5 bits (194), Expect = 3e-17
Identities = 23/117 (19%), Positives = 44/117 (37%), Gaps = 5/117 (4%)
Query: 63 TMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVE 122
A ++L L E + + GE++ Q ++ +V+ G V+
Sbjct: 5 AHEAQKAIARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVK 64
Query: 123 VYVNN----ELVTSV-GEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
++ E V SV G SFGE + TP + A T ++ + + ++
Sbjct: 65 LFRMTPTGSEAVVSVFTRGESFGEAVALRNTPYPVSAEAVTPCEVMHIPSPVFVSLM 121
Score = 76.2 bits (188), Expect = 2e-16
Identities = 18/119 (15%), Positives = 43/119 (36%), Gaps = 3/119 (2%)
Query: 181 KRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTAL 240
+ + ++ SL + + S+ E + Q + +++++G
Sbjct: 5 AHEAQKAIARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVK 64
Query: 241 VLQNTVE-EESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
+ + T E+ V V + FGE L + P + A P + + + F ++
Sbjct: 65 LFRMTPTGSEAVVSV--FTRGESFGEAVALRNTPYPVSAEAVTPCEVMHIPSPVFVSLM 121
>3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding,
DNA-binding nucleotide-binding, transcription,
transcription regulation; HET: CMP; 1.66A {Escherichia
coli}
Length = 260
Score = 79.0 bits (195), Expect = 3e-17
Identities = 27/112 (24%), Positives = 49/112 (43%), Gaps = 6/112 (5%)
Query: 69 KAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE 128
I VL + T ++I QG++ + Y I +G V V + +E
Sbjct: 46 ADIGSMVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDE 105
Query: 129 -----LVTSVGEGGSFGELALI-YGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
+++ + +G GEL L G R+A VRAKT ++ + +R+++
Sbjct: 106 EGKEMILSYLNQGDFIGELGLFEEGQERSAWVRAKTACEVAEISYKKFRQLI 157
Score = 73.9 bits (182), Expect = 2e-15
Identities = 22/114 (19%), Positives = 47/114 (41%), Gaps = 4/114 (3%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTV 246
+ + + + + K ++ QG+ + Y IV+G+ VL
Sbjct: 46 ADIGSMVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDE 105
Query: 247 E-EESPVEVGKLGPSDYFGEIALLLD-RPRAATVVAKGPLKCVKLDRARFERVL 298
E +E + L D+ GE+ L + + R+A V AK + ++ +F +++
Sbjct: 106 EGKEMILSY--LNQGDFIGELGLFEEGQERSAWVRAKTACEVAEISYKKFRQLI 157
>3ryp_A Catabolite gene activator; CAMP receptor protein (CRP), allostery,
DNA binding cyclic A transcription regulator; HET: CMP;
1.60A {Escherichia coli} PDB: 2cgp_A* 3hif_A 1g6n_A*
3ryr_A* 1i5z_A* 1j59_A* 1lb2_A* 1run_A* 1zrc_A* 1zrd_A*
1zre_A* 1zrf_A* 2gzw_A* 2wc2_A 3iyd_G* 3n4m_A* 3qop_A*
3rdi_A* 3rou_A* 3rpq_A* ...
Length = 210
Score = 77.7 bits (192), Expect = 4e-17
Identities = 25/105 (23%), Positives = 47/105 (44%), Gaps = 6/105 (5%)
Query: 76 LFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE-----LV 130
L + T ++I QG++ + Y I +G V V + +E ++
Sbjct: 3 LGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMIL 62
Query: 131 TSVGEGGSFGELALI-YGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
+ + +G GEL L G R+A VRAKT ++ + +R+++
Sbjct: 63 SYLNQGDFIGELGLFEEGQERSAWVRAKTACEVAEISYKKFRQLI 107
Score = 69.2 bits (170), Expect = 4e-14
Identities = 22/109 (20%), Positives = 46/109 (42%), Gaps = 4/109 (3%)
Query: 192 VSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVE-EES 250
+ + + + K ++ QG+ + Y IV+G+ VL E +E
Sbjct: 1 MVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEM 60
Query: 251 PVEVGKLGPSDYFGEIALLLD-RPRAATVVAKGPLKCVKLDRARFERVL 298
+ L D+ GE+ L + + R+A V AK + ++ +F +++
Sbjct: 61 ILSY--LNQGDFIGELGLFEEGQERSAWVRAKTACEVAEISYKKFRQLI 107
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 76.9 bits (190), Expect = 1e-16
Identities = 27/119 (22%), Positives = 52/119 (43%), Gaps = 4/119 (3%)
Query: 182 RKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALV 241
++++++ L + E L + + S + V+ + RQG+P FY ++ G +
Sbjct: 4 QRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKI 63
Query: 242 LQNTVE-EESPVEVGKLGPSDYFGEIALLLDRPR-AATVVAKGPLKCVKLDRARFERVL 298
+ T E +E +EV + F E + +D P AT A P + + + R L
Sbjct: 64 YRLTPEGQEKILEV--TNERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSNKAYLRQL 120
Score = 75.0 bits (185), Expect = 4e-16
Identities = 25/118 (21%), Positives = 46/118 (38%), Gaps = 7/118 (5%)
Query: 64 MAALSKAIAKNV-LFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVE 122
+ + + ++ LF L ++ + VN G + QG+ FY + G V+
Sbjct: 3 FQRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVK 62
Query: 123 VYVNNE-----LVTSVGEGGSFGELALIYGTPR-AATVRAKTDVKLWGLDRDSYRRIL 174
+Y ++ E +F E + TP AT +A +L+ +Y R L
Sbjct: 63 IYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSNKAYLRQL 120
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 76.0 bits (187), Expect = 8e-16
Identities = 34/106 (32%), Positives = 49/106 (46%), Gaps = 2/106 (1%)
Query: 69 KAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE 128
+ +A LF L +I A+ G I G+ GD + + +G V V N
Sbjct: 228 QLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNP 287
Query: 129 LVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
+ +G G FGE+ALI G PR+ATV A T V L L ++ +
Sbjct: 288 VE--LGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQMLC 331
Score = 75.3 bits (185), Expect = 1e-15
Identities = 33/128 (25%), Positives = 58/128 (45%), Gaps = 8/128 (6%)
Query: 180 RKRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTA 239
+ ++ V + + L + + +L + I R G+PGD + +VEG
Sbjct: 221 GDFVRNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEG-- 278
Query: 240 LVLQNTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLG 299
+V +PV +LGP +FGE+AL+ PR+ATV A + + L A F+ +
Sbjct: 279 ---SVSVATPNPV---ELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQMLCS 332
Query: 300 PCADILKR 307
+I +
Sbjct: 333 SSPEIAEI 340
>3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity,
CRP, CLP, C-DI-GMP receptor, quorum SENS binding,
transcription; 2.30A {Xanthomonas campestris PV}
Length = 230
Score = 73.9 bits (182), Expect = 1e-15
Identities = 27/154 (17%), Positives = 49/154 (31%), Gaps = 9/154 (5%)
Query: 64 MAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEV 123
++ + LD T + GD Y + G V +
Sbjct: 6 TTVVTTTVRNATPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSI 65
Query: 124 YVNN----ELVTSV-GEGGSFGELALIY-GTPRAATVRAKTDVKLWGLDRDSYRRILMGS 177
ELV G G GE+ L R +R +T +L + + +++ S
Sbjct: 66 IAEEDDDRELVLGYFGSGEFVGEMGLFIESDTREVILRTRTQCELAEISYERLQQLFQTS 125
Query: 178 TIRKR-KLYEEFLSRVS--ILESLEKWERLTVAD 208
++ ++S +L++ K RL D
Sbjct: 126 LSPDAPRILYAIGVQLSKRLLDTTRKASRLAFLD 159
Score = 71.9 bits (177), Expect = 6e-15
Identities = 13/115 (11%), Positives = 40/115 (34%), Gaps = 4/115 (3%)
Query: 186 EEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNT 245
+ + +L+ + + + R G P Y ++ G+ ++
Sbjct: 10 TTTVRNATPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSIIAEE 69
Query: 246 VE-EESPVEVGKLGPSDYFGEIALLLD-RPRAATVVAKGPLKCVKLDRARFERVL 298
+ E + G ++ GE+ L ++ R + + + ++ R +++
Sbjct: 70 DDDRELVLGY--FGSGEFVGEMGLFIESDTREVILRTRTQCELAEISYERLQQLF 122
>1o5l_A Transcriptional regulator, CRP family; TM1171, structural GE JCSG,
PSI, protein structure initiative, joint center for S
genomics; 2.30A {Thermotoga maritima} SCOP: b.82.3.2
Length = 213
Score = 73.0 bits (180), Expect = 2e-15
Identities = 14/111 (12%), Positives = 38/111 (34%), Gaps = 6/111 (5%)
Query: 71 IAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE-- 128
+ + + H + + GE + Q D ++ ++ +G ++ +E
Sbjct: 1 MGSDKIHHHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENG 60
Query: 129 ---LVTSVGEGGSFGELALIYGTPR-AATVRAKTDVKLWGLDRDSYRRILM 175
+ + + PR V A + K+ + ++ + +LM
Sbjct: 61 KTLEIDEIKPVQIIASGFIFSSEPRFPVNVVAGENSKILSIPKEVFLDLLM 111
Score = 66.1 bits (162), Expect = 6e-13
Identities = 19/112 (16%), Positives = 39/112 (34%), Gaps = 4/112 (3%)
Query: 189 LSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVE- 247
+ I + + + + F+ E + Q P +D I++EGT +
Sbjct: 1 MGSDKIHHHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENG 60
Query: 248 EESPVEVGKLGPSDYFGEIALLLDRPR-AATVVAKGPLKCVKLDRARFERVL 298
+ ++ + P + PR VVA K + + + F +L
Sbjct: 61 KTLEIDE--IKPVQIIASGFIFSSEPRFPVNVVAGENSKILSIPKEVFLDLL 110
>3dv8_A Transcriptional regulator, CRP/FNR family; cyclic
nucleotide-binding domain, structural genomics, joint
for structural genomics; 2.55A {Eubacterium rectale atcc
33656}
Length = 220
Score = 73.1 bits (180), Expect = 2e-15
Identities = 21/130 (16%), Positives = 46/130 (35%), Gaps = 7/130 (5%)
Query: 76 LFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNN----ELVT 131
L++ L+ + I D + + G I + ++ G++ Y+ + E+
Sbjct: 10 LWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQLRTYILSDEGREITL 69
Query: 132 SV---GEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEF 188
+ ++ T+ A+ D LW + + Y+ I+ S E
Sbjct: 70 YRLFDMDMCLLSASCIMRSIQFEVTIEAEKDTDLWIIPAEIYKGIMKDSAPVANYTNELM 129
Query: 189 LSRVSILESL 198
+R S + L
Sbjct: 130 ATRFSDVMWL 139
Score = 60.3 bits (147), Expect = 6e-11
Identities = 12/115 (10%), Positives = 35/115 (30%), Gaps = 5/115 (4%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTV 246
F + + L ++ ++D+L + I ++ G +
Sbjct: 3 SFENYFPLWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQLRTYILSD 62
Query: 247 E-EESPVEVGKLGPSDY--FGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
E E + + +L D ++ T+ A+ + ++ ++
Sbjct: 63 EGRE--ITLYRLFDMDMCLLSASCIMRSIQFEVTIEAEKDTDLWIIPAEIYKGIM 115
>1zyb_A Transcription regulator, CRP family; NP_813211.1, structural
genomics, joint center for structura genomics, JCSG;
2.15A {Bacteroides thetaiotaomicron} SCOP: a.4.5.4
b.82.3.2
Length = 232
Score = 72.7 bits (179), Expect = 4e-15
Identities = 23/148 (15%), Positives = 49/148 (33%), Gaps = 8/148 (5%)
Query: 57 VPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDA--MFPVNCLPGESIITQGDEGDNFY 114
+ + M + + + LF L + I D + + GE+II G+
Sbjct: 6 IHHHHHHMETMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLC 65
Query: 115 VIDQGEVEVYVNNE-----LVTSVGEGGSFGELALIYGTPR-AATVRAKTDVKLWGLDRD 168
+ +GE+ + N + ++ + +L A++ A T+V + +
Sbjct: 66 FLLKGEISIVTNAKENIYTVIEQIEAPYLIEPQSLFGMNTNYASSYVAHTEVHTVCISKA 125
Query: 169 SYRRILMGSTIRKRKLYEEFLSRVSILE 196
L I + +R L
Sbjct: 126 FVLSDLFRYDIFRLNYMNIVSNRAQNLY 153
Score = 66.5 bits (163), Expect = 5e-13
Identities = 18/118 (15%), Positives = 46/118 (38%), Gaps = 6/118 (5%)
Query: 185 YEEFLSRVSILESLEKWERLTVADSLEP--VSFQDKEAIVRQGQPGDDFYIIVEGTALVL 242
+ L ++ + + L + ++ D ++ + + E I++ G P +++G ++
Sbjct: 16 MFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISIV 75
Query: 243 QNTVE-EESPVEVGKLGPSDYFGEIALLLDRPR-AATVVAKGPLKCVKLDRARFERVL 298
N E + +E + +L A++ VA + V + +A L
Sbjct: 76 TNAKENIYTVIEQ--IEAPYLIEPQSLFGMNTNYASSYVAHTEVHTVCISKAFVLSDL 131
>2gau_A Transcriptional regulator, CRP/FNR family; structural genomics,
porphyromona gingivalis, PSI, protein structure
initiative; 1.90A {Porphyromonas gingivalis} SCOP:
a.4.5.4 b.82.3.2
Length = 232
Score = 71.5 bits (176), Expect = 8e-15
Identities = 17/104 (16%), Positives = 45/104 (43%), Gaps = 5/104 (4%)
Query: 76 LFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNN----ELVT 131
++S L+E R + + P C ++ ++GD +N + + +G++++ ++
Sbjct: 17 VWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFHIS 76
Query: 132 SV-GEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
+ G FG ++T A + K+ + ++ +L
Sbjct: 77 RIVKPGQFFGMRPYFAEETCSSTAIAVENSKVLAIPVEAIEALL 120
Score = 61.1 bits (149), Expect = 3e-11
Identities = 17/107 (15%), Positives = 41/107 (38%), Gaps = 1/107 (0%)
Query: 192 VSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVEEESP 251
+ L + ER + ++P + + +G ++ + + EG +L+ V
Sbjct: 15 RDVWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFH 74
Query: 252 VEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
+ + P +FG + ++T +A K + + E +L
Sbjct: 75 I-SRIVKPGQFFGMRPYFAEETCSSTAIAVENSKVLAIPVEAIEALL 120
>3e6c_C CPRK, cyclic nucleotide-binding protein; CPRK, halorespiration;
HET: DNA 3C4; 1.80A {Desulfitobacterium hafniense} SCOP:
a.4.5.4 b.82.3.2 PDB: 3e6b_A* 3e5u_C* 3e6d_A 3e5x_A*
3e5q_A 2h6b_A* 2h6c_A
Length = 250
Score = 68.1 bits (167), Expect = 2e-13
Identities = 12/105 (11%), Positives = 31/105 (29%), Gaps = 8/105 (7%)
Query: 75 VLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNN----ELV 130
+ + + + G ++I G+E + + +G++++ + E +
Sbjct: 15 IPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKL 74
Query: 131 TSV-GEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
G G+L A + S R +
Sbjct: 75 LYYAGGNSLIGKLYPT---GNNIYATAMEPTRTCWFSEKSLRTVF 116
Score = 60.4 bits (147), Expect = 6e-11
Identities = 14/121 (11%), Positives = 30/121 (24%), Gaps = 6/121 (4%)
Query: 179 IRKRKLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGT 238
+ L ++F + + F A++ G+ +VEG
Sbjct: 1 MSVEGLGKDFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGK 60
Query: 239 ALVLQNTVE-EESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERV 297
+ + E + G + G++ A P + V
Sbjct: 61 IKLDIIFEDGSEKLLYY--AGGNSLIGKLYPT---GNNIYATAMEPTRTCWFSEKSLRTV 115
Query: 298 L 298
Sbjct: 116 F 116
>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP,
cyclic nucleotide, regulation, auto-inhibition, CDC25
homology domain; 2.7A {Mus musculus}
Length = 999
Score = 70.3 bits (171), Expect = 2e-13
Identities = 54/266 (20%), Positives = 98/266 (36%), Gaps = 37/266 (13%)
Query: 12 KATSPEETEDLSPLPSQGQQSARRRGGISAEPV--SEEDATSYVKKVVPKDYKTMAALSK 69
K EE +D L SQ A R + P + +D + +
Sbjct: 293 KKECDEELQDTMLLLSQMGPDAHMRMILRKPPGQRTVDD---------------LEIIYD 337
Query: 70 AIAKNVLFSHLDENTRSDIFDAM-FPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE 128
+ SHL + ++ + F + G + QG+EG ++Y+I +G V V + +
Sbjct: 338 ELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGK 397
Query: 129 -LVTSVGEGGSFGELALIYGTPRAATVRAKTD-VKLWGLDRDSYRRILMGSTIRKRKLYE 186
+V ++ EG FG+LAL+ PRAA++ + D +D++ + RIL +L E
Sbjct: 398 GVVCTLHEGDDFGKLALVNDAPRAASIVLREDNCHFLRVDKEDFNRILRDVEANTVRLKE 457
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTV 246
V +LE + A + Y ++ GT +
Sbjct: 458 H-DQDVLVLEKVP----------------AGNRAANQGNSQPQQKYTVMSGTPEKILEHF 500
Query: 247 EEESPVEVGKLGPSDYFGEIALLLDR 272
E +E +D +++
Sbjct: 501 LETIRLEPSLNEATDSVLNDFVMMHC 526
Score = 68.7 bits (167), Expect = 6e-13
Identities = 27/144 (18%), Positives = 58/144 (40%), Gaps = 8/144 (5%)
Query: 77 FSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYV-------NNEL 129
F N I + N G ++ QGD G N+Y + G ++V V +
Sbjct: 50 FEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVT 109
Query: 130 VTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFL 189
+ ++G G +FGE +++ TPR AT+ + +L ++++ ++ + L
Sbjct: 110 ICTLGIGTAFGE-SILDNTPRHATIVTRESSELLRIEQEDFKALWEKYRQYMAGLLAPPY 168
Query: 190 SRVSILESLEKWERLTVADSLEPV 213
+ + ++ S + +
Sbjct: 169 GVMETGSNNDRIPDKENVPSEKIL 192
Score = 54.5 bits (130), Expect = 3e-08
Identities = 24/122 (19%), Positives = 50/122 (40%), Gaps = 2/122 (1%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALV-LQNT 245
L V E + + + + RQG G ++Y ++ G+ V + T
Sbjct: 42 TRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSET 101
Query: 246 VEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLGPCADIL 305
+ V + LG FGE ++L + PR AT+V + + +++++ F+ + +
Sbjct: 102 SSHQDAVTICTLGIGTAFGE-SILDNTPRHATIVTRESSELLRIEQEDFKALWEKYRQYM 160
Query: 306 KR 307
Sbjct: 161 AG 162
Score = 49.1 bits (116), Expect = 1e-06
Identities = 31/114 (27%), Positives = 53/114 (46%), Gaps = 7/114 (6%)
Query: 187 EFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIV-RQGQPGDDFYIIVEGTALVLQNT 245
+ L + L L + +A L S ++ QG+ G +YII++G+
Sbjct: 337 DELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS-----VN 391
Query: 246 VEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGP-LKCVKLDRARFERVL 298
V V L D FG++AL+ D PRAA++V + +++D+ F R+L
Sbjct: 392 VVIYGKGVVCTLHEGDDFGKLALVNDAPRAASIVLREDNCHFLRVDKEDFNRIL 445
>1ft9_A Carbon monoxide oxidation system transcription regulator; heme
sensor, catabolite gene activator protein; HET: HEM;
2.60A {Rhodospirillum rubrum} SCOP: a.4.5.4 b.82.3.1
Length = 222
Score = 67.3 bits (165), Expect = 2e-13
Identities = 16/127 (12%), Positives = 35/127 (27%), Gaps = 11/127 (8%)
Query: 76 LFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE----LVT 131
+ + L F G + T + + +V+ G + VY+ E +
Sbjct: 7 IANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEEREISLF 66
Query: 132 SVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSR 191
+ G F + V A ++ D ++ + L L
Sbjct: 67 YLTSGDMFCMHS-------GCLVEATERTEVRFADIRTFEQKLQTCPSMAWGLIAILGRA 119
Query: 192 VSILESL 198
++
Sbjct: 120 LTSCMRT 126
Score = 59.6 bits (145), Expect = 1e-10
Identities = 18/110 (16%), Positives = 30/110 (27%), Gaps = 9/110 (8%)
Query: 189 LSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVEE 248
R +I L + T + + +++V+G V E
Sbjct: 2 PPRFNIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEER 61
Query: 249 ESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
E + L D F + V A + D FE+ L
Sbjct: 62 EISLFY--LTSGDMFCMHS-------GCLVEATERTEVRFADIRTFEQKL 102
>2oz6_A Virulence factor regulator; winged helix, helix-turn-helix,
transcription factor, CAMP-B proteins, CAMP receptor
protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP:
a.4.5.4 b.82.3.2
Length = 207
Score = 66.1 bits (162), Expect = 5e-13
Identities = 21/104 (20%), Positives = 39/104 (37%), Gaps = 9/104 (8%)
Query: 80 LDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNN----ELVTSV-G 134
+ + +II GD + + I +G V + + + E++
Sbjct: 1 MKLKHLDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLN 60
Query: 135 EGGSFGELALIYGT----PRAATVRAKTDVKLWGLDRDSYRRIL 174
G FGEL L R+A VRAK + ++ + +R +
Sbjct: 61 SGDFFGELGLFEKEGSEQERSAWVRAKVECEVAEISYAKFRELS 104
Score = 62.6 bits (153), Expect = 8e-12
Identities = 20/106 (18%), Positives = 43/106 (40%), Gaps = 7/106 (6%)
Query: 198 LEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVE-EESPVEVGK 256
++ + + K I+ G + + I++G+ +L + E +
Sbjct: 1 MKLKHLDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGY-- 58
Query: 257 LGPSDYFGEIALL----LDRPRAATVVAKGPLKCVKLDRARFERVL 298
L D+FGE+ L ++ R+A V AK + ++ A+F +
Sbjct: 59 LNSGDFFGELGLFEKEGSEQERSAWVRAKVECEVAEISYAKFRELS 104
>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4,
CAMP, SP-camps, GEF, gunanine nucleotide exchange
factor, G-protein, GTP-binding, nucleotide-binding; HET:
SP1; 2.20A {Mus musculus}
Length = 694
Score = 67.5 bits (164), Expect = 1e-12
Identities = 38/150 (25%), Positives = 70/150 (46%), Gaps = 4/150 (2%)
Query: 66 ALSKAIAKNVLFSHLDENTRSDIFDAM-FPVNCLPGESIITQGDEGDNFYVIDQGEVEVY 124
+ + SHL + ++ + F + G + QG+EG ++Y+I +G V V
Sbjct: 29 IIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVV 88
Query: 125 VNNE-LVTSVGEGGSFGELALIYGTPRAATVRAKTD-VKLWGLDRDSYRRILMGSTIRKR 182
+ + +V ++ EG FG+LAL+ PRAA++ + D +D++ + RIL
Sbjct: 89 IYGKGVVCTLHEGDDFGKLALVNDAPRAASIVLREDNCHFLRVDKEDFNRILRDVEANTV 148
Query: 183 KLYEEFLSRVSILESLEKWERLTVADSLEP 212
+L E V +LE + R + +P
Sbjct: 149 RLKEHD-QDVLVLEKVPAGNRAANQGNSQP 177
Score = 48.7 bits (115), Expect = 1e-06
Identities = 31/117 (26%), Positives = 54/117 (46%), Gaps = 7/117 (5%)
Query: 184 LYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIV-RQGQPGDDFYIIVEGTALVL 242
+ + L + L L + +A L S ++ QG+ G +YII++G+
Sbjct: 29 IIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS---- 84
Query: 243 QNTVEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGP-LKCVKLDRARFERVL 298
V V L D FG++AL+ D PRAA++V + +++D+ F R+L
Sbjct: 85 -VNVVIYGKGVVCTLHEGDDFGKLALVNDAPRAASIVLREDNCHFLRVDKEDFNRIL 140
>3la7_A Global nitrogen regulator; activator, DNA-binding, transcription,
transcription regulation; HET: BOG; 1.90A {Anabaena}
PDB: 3la2_A* 3la3_A* 2xko_A* 2xgx_A* 2xhk_A* 2xkp_A*
Length = 243
Score = 65.0 bits (159), Expect = 2e-12
Identities = 24/116 (20%), Positives = 45/116 (38%), Gaps = 17/116 (14%)
Query: 76 LFSHL---DENTRSDIFDAMFPVNCLP-------GESIITQGDEGDNFYVIDQGEVEVYV 125
SH+ + +++F M P ++I GD + Y + +G V++
Sbjct: 17 RGSHMIVTQDKALANVFRQMATGAFPPVVETFERNKTIFFPGDPAERVYFLLKGAVKLSR 76
Query: 126 NN----ELVTSV-GEGGSFGELALIYG--TPRAATVRAKTDVKLWGLDRDSYRRIL 174
E+ ++ E FG L+L+ G + R A T V+L + + L
Sbjct: 77 VYEAGEEITVALLRENSVFGVLSLLTGNKSDRFYHAVAFTPVELLSAPIEQVEQAL 132
Score = 58.5 bits (142), Expect = 3e-10
Identities = 22/123 (17%), Positives = 45/123 (36%), Gaps = 15/123 (12%)
Query: 189 LSRVSILESLEKWERLTVADSLEPVS----------FQDKEAIVRQGQPGDDFYIIVEGT 238
V + + +A+ ++ F+ + I G P + Y +++G
Sbjct: 12 SGLVPRGSHMIVTQDKALANVFRQMATGAFPPVVETFERNKTIFFPGDPAERVYFLLKGA 71
Query: 239 ALVLQNTVE-EESPVEVGKLGPSDYFGEIALLLDR--PRAATVVAKGPLKCVKLDRARFE 295
+ + EE V + L + FG ++LL R VA P++ + + E
Sbjct: 72 VKLSRVYEAGEEITVAL--LRENSVFGVLSLLTGNKSDRFYHAVAFTPVELLSAPIEQVE 129
Query: 296 RVL 298
+ L
Sbjct: 130 QAL 132
>2fmy_A COOA, carbon monoxide oxidation system transcription RE COOA-1; DNA
transcription regulator, DNA binding protein; HET: HEM;
2.20A {Carboxydothermus hydrogenoformans} PDB: 2hkx_A*
Length = 220
Score = 63.8 bits (156), Expect = 3e-12
Identities = 17/103 (16%), Positives = 34/103 (33%), Gaps = 11/103 (10%)
Query: 76 LFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEVYVNNE----LVT 131
L L+ S + + T E + +++ G V VY+ E +
Sbjct: 11 LLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAYEDKEFTLA 70
Query: 132 SVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRIL 174
+ G F A ++A D + D +++ I+
Sbjct: 71 ILEAGDIFCTHTR-------AFIQAMEDTTILYTDIRNFQNIV 106
Score = 59.6 bits (145), Expect = 9e-11
Identities = 17/113 (15%), Positives = 36/113 (31%), Gaps = 9/113 (7%)
Query: 186 EEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNT 245
+ L+ ++LE L E V + K + + +++ G V
Sbjct: 3 QMRLTDTNLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAY 62
Query: 246 VEEESPVEVGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
++E + + L D F A + A + D F+ ++
Sbjct: 63 EDKEFTLAI--LEAGDIFCT-------HTRAFIQAMEDTTILYTDIRNFQNIV 106
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 58.0 bits (141), Expect = 2e-10
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 8/84 (9%)
Query: 99 PGESIITQGDEG--DNFYVIDQGEVEVYVNNE-----LVTSVGEGGSFGELALIYGTPRA 151
G+ I+ G G D Y + +G V + +E + V GG FGE AL G R
Sbjct: 12 AGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFGEEALF-GQERI 70
Query: 152 ATVRAKTDVKLWGLDRDSYRRILM 175
A TDV+L L + +L
Sbjct: 71 YFAEAATDVRLEPLPENPDPELLK 94
Score = 54.6 bits (132), Expect = 5e-09
Identities = 23/95 (24%), Positives = 37/95 (38%), Gaps = 6/95 (6%)
Query: 207 ADSLEPVSFQDKEAIVRQGQPG--DDFYIIVEGTALVLQNTVE-EESPVEVGKLGPSDYF 263
E VSF+ + I+ G PG D Y ++EG + E + + + P +F
Sbjct: 2 TQVRETVSFKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRL--VRPGGFF 59
Query: 264 GEIALLLDRPRAATVVAKGPLKCVKLDRARFERVL 298
GE AL + R A ++ L +L
Sbjct: 60 GEEALF-GQERIYFAEAATDVRLEPLPENPDPELL 93
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 57.2 bits (139), Expect = 5e-10
Identities = 21/87 (24%), Positives = 33/87 (37%), Gaps = 6/87 (6%)
Query: 99 PGESIITQGDEGDNFYVIDQGEVEVYVNN----ELVTSV-GEGGSFGELALIYGTPRAAT 153
E+I +G+E Y +++G V V + G FGE AL G T
Sbjct: 6 RKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEAL-EGKAYRYT 64
Query: 154 VRAKTDVKLWGLDRDSYRRILMGSTIR 180
A T+ + GL+ + + R
Sbjct: 65 AEAMTEAVVQGLEPRAMDHEALHRVAR 91
Score = 53.7 bits (130), Expect = 8e-09
Identities = 20/85 (23%), Positives = 31/85 (36%), Gaps = 2/85 (2%)
Query: 214 SFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVEEESPVEVGKLGPSDYFGEIALLLDRP 273
F KE I +G+ Y + EG V++ + + + P DYFGE A L +
Sbjct: 3 RFARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLIT-LRHVLPGDYFGEEA-LEGKA 60
Query: 274 RAATVVAKGPLKCVKLDRARFERVL 298
T A L+ +
Sbjct: 61 YRYTAEAMTEAVVQGLEPRAMDHEA 85
>2bgc_A PRFA; bacterial infection, human pathogen, transcriptional regulat
transcription; HET: PR3; 2.3A {Listeria monocytogenes}
SCOP: a.4.5.4 b.82.3.3 PDB: 2beo_A* 1omi_A
Length = 238
Score = 55.1 bits (133), Expect = 4e-09
Identities = 11/103 (10%), Positives = 31/103 (30%), Gaps = 5/103 (4%)
Query: 199 EKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVE-EESPVEVGKL 257
E++++ + ++P F KE I Q P + + +G + + ++
Sbjct: 7 EEFKKYLETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQY--Y 64
Query: 258 GPSDYFGEIALLLDRPRA--ATVVAKGPLKCVKLDRARFERVL 298
+ + + V + + +L
Sbjct: 65 KGAFVIMSGFIDTETSVGYYNLEVISEQATAYVIKINELKELL 107
Score = 52.7 bits (127), Expect = 3e-08
Identities = 7/82 (8%), Positives = 19/82 (23%), Gaps = 7/82 (8%)
Query: 100 GESIITQGDEGDNFYVIDQGEVEVYVNN----ELVTSV-GEGGSFGELALIYGTPRA--A 152
E I Q D + + G ++ + + + T
Sbjct: 26 KELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMSGFIDTETSVGYYN 85
Query: 153 TVRAKTDVKLWGLDRDSYRRIL 174
+ + + + +L
Sbjct: 86 LEVISEQATAYVIKINELKELL 107
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 48.1 bits (114), Expect = 2e-06
Identities = 63/385 (16%), Positives = 108/385 (28%), Gaps = 166/385 (43%)
Query: 39 ISAEPVSEEDATSYVKKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCL 98
++A+ + E D T K + K+Y T A+ + D+ + S +F A+
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYIT--------ARIMAKRPFDKKSNSALFRAV------ 149
Query: 99 PGESIITQGDEGD-NFYVI--DQGEVEVYVNNELVTSVGEGGSFGELALIYGTPR----- 150
EG+ I QG + Y F EL +Y T
Sbjct: 150 ---------GEGNAQLVAIFGGQGNTDDY--------------FEELRDLYQTYHVLVGD 186
Query: 151 -------------AATVRAKT------DVKLW---------------------------- 163
T+ A+ ++ W
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQL 246
Query: 164 ----------GLDRDSYRRILMGSTIRKRKLY-----------EEFLSRVS--------I 194
G R L G+T + L E F V I
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI 306
Query: 195 -LESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYII-VEGTALV-LQNTVEEESP 251
+ E + SL P +D +G P ++ + +Q+ V
Sbjct: 307 GVRCYEAYPNT----SLPPSILEDSLE-NNEGVPS---PMLSISNLTQEQVQDYVN---- 354
Query: 252 VEVGKLGPSDYFGEIALLLDRPRAATVVAKGP----------LKCVK----LDRAR--FE 295
+ P+ EI+ L++ + VV+ GP L+ K LD++R F
Sbjct: 355 -KTNSHLPAGKQVEIS-LVNGAKNL-VVS-GPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 296 RVLGPCADILKRNITQYNSFVSLSV 320
+R + N F+ ++
Sbjct: 411 ----------ERKLKFSNRFLPVAS 425
Score = 43.9 bits (103), Expect = 5e-05
Identities = 42/246 (17%), Positives = 75/246 (30%), Gaps = 83/246 (33%)
Query: 108 DEGDNFYVIDQGE--VEVYVNNELVTSVGEGGSFGE------LALIYGTPRAATVRAKTD 159
+ DN + G +++ +NN + ++ GG G+ A+I+ T ++ +
Sbjct: 1647 NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKI 1706
Query: 160 VKLWGLDRDSYRRILMGSTIRKRKLYE-EF------LSRVSILESLEKWERL-------- 204
K ++ S K L +F L + E L+ +
Sbjct: 1707 FK--EINEHSTSYTFRSE---KGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAG 1761
Query: 205 ----------TVADSLEPVSFQDKEAIVRQ-GQPGDDFYIIVEGTALVLQNTVEEESPVE 253
++AD + S + +V G +Q V
Sbjct: 1762 HSLGEYAALASLADVM---SIESLVEVVFYRGM--------------TMQVAVPR----- 1799
Query: 254 VGKLGPSDYFGEIALLLDRPRAATVVAKGPLKCVKLDRARFERVLGPCADILKRN----- 308
+LG S+Y G IA+ P V A + + V + KR
Sbjct: 1800 -DELGRSNY-GMIAI---NP--GRVAA-------SFSQEALQYV---VERVGKRTGWLVE 1842
Query: 309 ITQYNS 314
I YN
Sbjct: 1843 IVNYNV 1848
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 42.4 bits (100), Expect = 5e-05
Identities = 18/154 (11%), Positives = 44/154 (28%), Gaps = 12/154 (7%)
Query: 64 MAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNFYVIDQGEVEV 123
AL I K F L + + E+++ G+ Y + +G + +
Sbjct: 5 HTALINHIRK---FIFLTDEDAGTLSAFFQLKKVRKKETLLKTGEICRINYFVVKGCLRL 61
Query: 124 YVNN----ELVTSVGEGGSF--GELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGS 177
+ + E T + +A P +++ + +L + L
Sbjct: 62 FFIDEKGIEQTTQFAIENWWLSDYMAFQKQQPADFYIQSVENCELLSITYTEQEN-LFER 120
Query: 178 TIRKRKLYEEFLSRVSILESLEKWERLTVADSLE 211
+ + + + + + S E
Sbjct: 121 IPALERYFRLVYQKS--FAAAQLRSKFQHMYSKE 152
Score = 35.9 bits (83), Expect = 0.008
Identities = 17/134 (12%), Positives = 47/134 (35%), Gaps = 4/134 (2%)
Query: 183 KLYEEFLSRVSILESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVL 242
++ ++ + L + T++ + + KE +++ G+ Y +V+G L L
Sbjct: 3 AMHTALINHIRKFIFLTDEDAGTLSAFFQLKKVRKKETLLKTGEICRINYFVVKGC-LRL 61
Query: 243 QNTVEEESPVEVGKLGPSDYFGEI-ALLLDRPRAATVVAKGPLKCVKLDRARFERVLG-- 299
E+ + + + A +P + + + + + E +
Sbjct: 62 FFIDEKGIEQTTQFAIENWWLSDYMAFQKQQPADFYIQSVENCELLSITYTEQENLFERI 121
Query: 300 PCADILKRNITQYN 313
P + R + Q +
Sbjct: 122 PALERYFRLVYQKS 135
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 43.7 bits (102), Expect = 6e-05
Identities = 51/379 (13%), Positives = 111/379 (29%), Gaps = 104/379 (27%)
Query: 8 DAKLKATSPEETEDLSPLPSQGQQSARRRGGISAEPVSEEDATSYVKKVVPKDYK-TMAA 66
D S EE + + + R + ++ EE +V++V+ +YK M+
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ--EEMVQKFVEEVLRINYKFLMSP 97
Query: 67 LSKAI----AKNVLFSHLDENTRSD--IFDAMF-----PV----NCL----PGESIITQG 107
+ ++ + +D +F P L P ++++ G
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG 157
Query: 108 DEGDNFYVIDQGE----VEVYVNNELVTSVGEGG----SFGELALIYGTPRAATVRAKTD 159
G G+ ++V + V + + +P +
Sbjct: 158 VLG-------SGKTWVALDV-CLSYKVQCKMDFKIFWLNLKN----CNSPETVLEMLQK- 204
Query: 160 VKLWG-LDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEKWER-LTVADSLEPVSFQD 217
L +D + R S I+ R + + L + +E L V ++ Q+
Sbjct: 205 --LLYQIDPNWTSRSDHSSNIKLR--IHSIQAELRRLLKSKPYENCLLVLLNV-----QN 255
Query: 218 KEAIVRQGQPGDDF----YIIV----EGTALVLQNTVEEESPVEVGKLGPSDYFGE---I 266
+A + F I++ + L ++ +
Sbjct: 256 AKAW-------NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT----LTPDEVK 304
Query: 267 ALLL--------DRPRAATVVAKGPLKC------VKLDRARFE-----------RVLGPC 301
+LLL D PR P + ++ A ++ ++
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTN--PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 302 ADILKRNITQYNSFVSLSV 320
++L+ + F LSV
Sbjct: 363 LNVLEPAEYR-KMFDRLSV 380
Score = 34.8 bits (79), Expect = 0.039
Identities = 30/196 (15%), Positives = 66/196 (33%), Gaps = 60/196 (30%)
Query: 16 PEETEDLSPLPSQGQQSARRRGGIS--AEPVSEEDATS-YVKKVVPKDYKTMAALSKAIA 72
P E +P +S AE + + AT K V + L+ I
Sbjct: 319 PREVLTTNPR------------RLSIIAESIRDGLATWDNWKHV---NCD---KLTTIIE 360
Query: 73 KNVLFSHLDENTRSDIFD--AMFP--VNCLPGE--SIITQGDEGDNFYVIDQGEVEVYVN 126
++ + L+ +FD ++FP + +P S+I +V V V
Sbjct: 361 SSL--NVLEPAEYRKMFDRLSVFPPSAH-IPTILLSLIWFDVIKS--------DVMVVV- 408
Query: 127 NELVTSVGEGGSFGELALIYGTPRAATVRAKTDVKLWGLDRDSYRRILMGSTIRKRKLYE 186
N+L +L+ P+ +T+ + + + ++ + L+
Sbjct: 409 NKLHKY----------SLVEKQPKESTIS------IPSIYLELKVKLE-----NEYALHR 447
Query: 187 EFLSRVSILESLEKWE 202
+ +I ++ + +
Sbjct: 448 SIVDHYNIPKTFDSDD 463
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.33
Identities = 7/43 (16%), Positives = 17/43 (39%), Gaps = 9/43 (20%)
Query: 196 ESLEKW-----ERLTVADSLEPVSFQDKEAIVRQGQPG-DDFY 232
ES+ KW +RL D+ ++ + + +++
Sbjct: 85 ESIRKWREEQRKRLQELDAASK---VMEQEWREKAKKDLEEWN 124
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.7 bits (68), Expect = 0.37
Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 24/52 (46%)
Query: 196 ESLEKWERLTVADSLEPVSFQDKEAIVRQGQPGDDFYIIVEGTALVLQNTVE 247
++L+K + SL+ + D A P AL ++ T+E
Sbjct: 20 QALKKLQ-----ASLKL--YADDSA------P-----------ALAIKATME 47
>3ibm_A Cupin 2, conserved barrel domain protein; cupin 2 family,
metal-binding site, beta barrel, PSI-2, NYSG structural
genomics; 2.00A {Halorhodospira halophila SL1}
Length = 167
Score = 30.4 bits (68), Expect = 0.51
Identities = 11/86 (12%), Positives = 24/86 (27%), Gaps = 3/86 (3%)
Query: 54 KKVVPKDYKTMAALSKAIAKNVLFSHLDENTRSDIFDAMFPVNCLPGESIITQGDEGDNF 113
+ + YK + L F V PG + E +
Sbjct: 22 EGTEEEAYKAEGTHFSGARRQTLVGRPAGQEAPAFETRYFEVE--PGGYTTLERHEHTHV 79
Query: 114 YVIDQGEVEVYVNNELVTSVGEGGSF 139
++ +G EV +++ + +
Sbjct: 80 VMVVRGHAEVVLDDRVEP-LTPLDCV 104
>3h8u_A Uncharacterized conserved protein with double-STR beta-helix
domain; YP_001338853.1; HET: 2PE; 1.80A {Klebsiella
pneumoniae subsp}
Length = 125
Score = 26.3 bits (58), Expect = 6.7
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 99 PGESIITQ--GDEGDNFYVIDQGEVEVYVNNELVTSVGEGGS 138
PG+ I + D + VI GE E + N +VT + G
Sbjct: 48 PGQEIASHVHPHGQDTWTVI-SGEAEYHQGNGIVTHLKAGDI 88
>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase,
hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB:
2oaq_1
Length = 511
Score = 27.4 bits (61), Expect = 7.6
Identities = 10/45 (22%), Positives = 19/45 (42%)
Query: 156 AKTDVKLWGLDRDSYRRILMGSTIRKRKLYEEFLSRVSILESLEK 200
K D + ++ + +++Y+E LSR LE + K
Sbjct: 436 PKEDKHIEVSMPKKLEKMADFLGVSVQEVYDEMLSRKRYLELMLK 480
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.315 0.134 0.376
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,812,742
Number of extensions: 297369
Number of successful extensions: 781
Number of sequences better than 10.0: 1
Number of HSP's gapped: 652
Number of HSP's successfully gapped: 107
Length of query: 320
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 226
Effective length of database: 4,077,219
Effective search space: 921451494
Effective search space used: 921451494
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 57 (25.7 bits)