RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9025
(361 letters)
>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 = 191 bits (488), Expect = 9e-61
Identities = 36/149 (24%), Positives = 72/149 (48%), Gaps = 1/149 (0%)
Query: 91 SEDENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYI 150
S K+L P ++ D+ ++++ + + F+ + LR L ++ + V PGD I
Sbjct: 2 SHMTEKVLQICPKDMRADICVHLNRKVFKEHPAFRLASDGCLRALAMEFQTVHCAPGDLI 61
Query: 151 CRKGEVGKEMYIVKTGQVQVVSGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFS 210
GE + V +G ++V+ + V+A L +G VFG++ A + A+VR+ +
Sbjct: 62 YHAGESVDSLCFVVSGSLEVIQDDEVVAILGKGDVFGDVFWK-EATLAQSCANVRALTYC 120
Query: 211 NLFVLNKDDLNEAIEYYPNAQEVLKKKAR 239
+L V+ +D L + +E+Y +
Sbjct: 121 DLHVIKRDALQKVLEFYTAFSHSFSRNLI 149
>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 = 186 bits (475), Expect = 3e-58
Identities = 55/204 (26%), Positives = 97/204 (47%), Gaps = 16/204 (7%)
Query: 48 RRERFIQERIRHLAHVFTERAQKI-----KRILDFPPTPSSSTTLSSSSEDENKILNNLP 102
R ++ QE+ + + + K+ ++I D+ DE+ IL L
Sbjct: 7 SRRQY-QEKYKQVEQYMSFH--KLPADFRQKIHDY-----YEHRYQGKMFDEDSILGELN 58
Query: 103 LKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYI 162
L+ + + ++ + LF + D + ++ KL+ ++ PGDYI R+G +GK+MY
Sbjct: 59 GPLREKIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYF 118
Query: 163 VKTGQVQVVSGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNE 222
++ G V V++ L++GS FGEI LL RRTA VR+ + L+ L+ D+ NE
Sbjct: 119 IQHGVVSVLTKGNKEMKLSDGSYFGEICLLTR---GRRTASVRADTYCRLYSLSVDNFNE 175
Query: 223 AIEYYPNAQEVLKKKARQLIKENA 246
+E YP + + A +
Sbjct: 176 VLEEYPMMRRAFETVAIDRLDRIG 199
>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 = 185 bits (473), Expect = 6e-58
Identities = 38/157 (24%), Positives = 73/157 (46%), Gaps = 4/157 (2%)
Query: 88 SSSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPG 147
DE I + ++ DVA ++ V F D + +V L ++ P
Sbjct: 43 RGKMFDERHIFREVSESIRQDVANYNCRDLVASVPFFVGADSNFVTRVVTLLEFEVFQPA 102
Query: 148 DYICRKGEVGKEMYIVKTGQVQVVS-GETVLATLTEGSVFGEISLLALAGTNRRTADVRS 206
DY+ ++G G M+ ++ G V ++ + +L++GS FGEI LL RR A V+
Sbjct: 103 DYVIQEGTFGDRMFFIQQGIVDIIMSDGVIATSLSDGSYFGEICLL---TRERRVASVKC 159
Query: 207 HGFSNLFVLNKDDLNEAIEYYPNAQEVLKKKARQLIK 243
+ LF L+ N+ ++ +P ++ +++ A + +
Sbjct: 160 ETYCTLFSLSVQHFNQVLDEFPAMRKTMEEIAVRRLT 196
>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 = 177 bits (451), Expect = 2e-54
Identities = 38/153 (24%), Positives = 81/153 (52%), Gaps = 2/153 (1%)
Query: 93 DENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICR 152
D +++L + P +L+ D+A++++ + L ++ LF+ LR L L ++ PG+++ R
Sbjct: 53 DVSELLKDFPDELRADIAMHLN-KELLQLPLFESASRGCLRSLSLIIKTSFCAPGEFLIR 111
Query: 153 KGEVGKEMYIVKTGQVQVVSGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNL 212
+G+ + +Y V +G ++V+ TVLA L +G + G SL + A+V++ + +L
Sbjct: 112 QGDALQAIYFVCSGSMEVLKDNTVLAILGKGDLIGSDSLT-KEQVIKTNANVKALTYCDL 170
Query: 213 FVLNKDDLNEAIEYYPNAQEVLKKKARQLIKEN 245
++ L E + YP + + + + N
Sbjct: 171 QYISLKGLREVLRLYPEYAQKFVSEIQHDLTYN 203
>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 = 144 bits (365), Expect = 8e-43
Identities = 29/124 (23%), Positives = 51/124 (41%), Gaps = 12/124 (9%)
Query: 117 TLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVS---- 172
+ +V LF++ DE LL + +L+P L+ Y+ R+G+ EM + G+++ V+
Sbjct: 7 GVRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGG 66
Query: 173 --GETVLATLTEGSVFGEISLLALAGTN------RRTADVRSHGFSNLFVLNKDDLNEAI 224
G + L EG G+ L T V++ F L D+L
Sbjct: 67 RSGFYNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTRTVKALTEVEAFALIADELKFVA 126
Query: 225 EYYP 228
+
Sbjct: 127 SQFR 130
>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 = 130 bits (328), Expect = 3e-37
Identities = 40/135 (29%), Positives = 59/135 (43%), Gaps = 5/135 (3%)
Query: 113 VHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVS 172
+ Q ++ V LFQ A+L E+V LR G ICR GE G M+ V G V V +
Sbjct: 8 RNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVAT 67
Query: 173 GETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQE 232
L G+ FGE++L+ R+A V + +L L+ D P E
Sbjct: 68 PNP--VELGPGAFFGEMALI---SGEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAE 122
Query: 233 VLKKKARQLIKENAA 247
+ +K A + A+
Sbjct: 123 IFRKTALERRGAAAS 137
>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 = 107 bits (268), Expect = 2e-28
Identities = 30/129 (23%), Positives = 64/129 (49%), Gaps = 5/129 (3%)
Query: 101 LPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEM 160
LP K+ + ++ + + ++ + + ++E+V + PV Y I ++G+VG +
Sbjct: 8 LPFYPKSPQSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLV 67
Query: 161 YIVKTGQVQVVSGETVLATLTEGSVFGEISLLALAGTN-RRTADVRSHGFSNLFVLNKDD 219
Y+++ G+V+V L T+ G VFGE+++L N RTA V++ L+ +++
Sbjct: 68 YVMEDGKVEVTKEGVKLCTMGPGKVFGELAIL----YNCTRTATVKTLVNVKLWAIDRQC 123
Query: 220 LNEAIEYYP 228
+
Sbjct: 124 FQTIMMRTG 132
>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 = 104 bits (261), Expect = 6e-27
Identities = 33/176 (18%), Positives = 76/176 (43%), Gaps = 11/176 (6%)
Query: 95 NKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKG 154
+ +L D ++ ++K++LF D +R L ++ + +G
Sbjct: 18 QGMYPDLVHLGGADKYFEEILEIVNKIKLFGDFSNEEVRYLCSYMQCYAAPRDCQLLTEG 77
Query: 155 EVGKEMYIVKTGQVQVV-----SGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGF 209
+ G + ++ TG+V V+ G +A + G++ GE+S++ R+A +
Sbjct: 78 DPGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAGAIIGEMSMI---DGMPRSASCVASLP 134
Query: 210 SNLFVLNKDDLNEAIEYYPNAQEVLKKKARQLIKENAARERVSQPKLSTMDASSVL 265
++ VL++D L + + P ++ K +L++ AR R S ++ ++
Sbjct: 135 TDFAVLSRDALYQLLANMP---KLGNKVLIRLLQLLTARFRESYDRILPKTLGELI 187
>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 = 103 bits (258), Expect = 6e-27
Identities = 26/146 (17%), Positives = 60/146 (41%), Gaps = 6/146 (4%)
Query: 85 TTLSSSSEDENKILN-NLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVL 143
+S+ E + + K + + + K LF D+ ++ + PV
Sbjct: 6 GAISAEVYTEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAMFPVS 65
Query: 144 YLPGDYICRKGEVGKEMYIVKTGQVQVVSGETVLATLTEGSVFGEISLLALAGTN-RRTA 202
++ G+ + ++G+ G Y++ G++ V ++ EG FGE++L+ R A
Sbjct: 66 FIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFGELALI----YGTPRAA 121
Query: 203 DVRSHGFSNLFVLNKDDLNEAIEYYP 228
V++ L+ +++D +
Sbjct: 122 TVKAKTNVKLWGIDRDSYRRILMGST 147
>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 = 97.4 bits (243), Expect = 1e-24
Identities = 23/128 (17%), Positives = 49/128 (38%), Gaps = 9/128 (7%)
Query: 106 KTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKT 165
KTD N + + LF++ D + +++ + L G+++ +G+ G Y++
Sbjct: 28 KTDDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDR 87
Query: 166 GQVQVV----SGETVLATLTEGSVFGEISLLALAGTN-RRTADVRSHGFSNLFVLNKDDL 220
G + + FGE++L+ N R A + + L+ L++
Sbjct: 88 GTFDIYVKCDGVGRCVGNYDNRGSFGELALM----YNTPRAATITATSPGALWGLDRVTF 143
Query: 221 NEAIEYYP 228
I
Sbjct: 144 RRIIVKNN 151
>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 = 94.7 bits (236), Expect = 7e-24
Identities = 21/138 (15%), Positives = 51/138 (36%), Gaps = 12/138 (8%)
Query: 113 VHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV- 171
+ + L + F + L+++ L + G I ++ + ++ G V++
Sbjct: 3 ISPERLRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGVELFY 62
Query: 172 -------SGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAI 224
+ + + ++ G++FG SL+ T+ R+ + +N L E
Sbjct: 63 SNGGAGSAANSTVCSVVPGAIFGVSSLI---KPYHYTSSARATKPVRVVDINGARLREMS 119
Query: 225 EYYPN-AQEVLKKKARQL 241
E Q ++ A +
Sbjct: 120 ENNQALGQVLMNNVAAAV 137
>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 = 96.8 bits (241), Expect = 1e-23
Identities = 31/124 (25%), Positives = 54/124 (43%), Gaps = 7/124 (5%)
Query: 114 HIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV-S 172
+ L + + + +L L +Y PG+ I R+G+ G+ Y+++ G V V
Sbjct: 123 YDDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAVDVSKK 182
Query: 173 GETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQE 232
G+ V+ L + FGE++LL R A V + + + L K + A +
Sbjct: 183 GQGVINKLKDHDYFGEVALL---NDLPRQATVTATKRTKVATLGKSGFQRLL---GPAVD 236
Query: 233 VLKK 236
VLK
Sbjct: 237 VLKL 240
Score = 89.5 bits (222), Expect = 6e-21
Identities = 26/114 (22%), Positives = 46/114 (40%), Gaps = 3/114 (2%)
Query: 116 QTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVSGET 175
+++ LF D R ++ L G I ++G+ G Y+V+ G V +
Sbjct: 7 KSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVDFYVNDN 66
Query: 176 VLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPN 229
+ + GS FGE LAL + R A V + L+ L++ + +
Sbjct: 67 KVNSSGPGSSFGE---LALMYNSPRAATVVATSDCLLWALDRLTFRKILLGSSF 117
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 93.1 bits (232), Expect = 3e-23
Identities = 38/153 (24%), Positives = 58/153 (37%), Gaps = 18/153 (11%)
Query: 118 LSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVSG---- 173
L + LF D+ EL + V GD + +G+ G +Y+V G+V++
Sbjct: 7 LRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHRTSPDG 66
Query: 174 -ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQE 232
E +LA + + GE+SL RTA + L L DL + P
Sbjct: 67 RENMLAVVGPSELIGELSLF---DPGPRTATGTALTEVKLLALGHGDLQPWLNVRPEV-- 121
Query: 233 VLKKKARQLIKENAARERVSQPK---LSTMDAS 262
A L++ A R R + L D S
Sbjct: 122 -----ATALLRAVARRLRKTNDAMSDLVFSDGS 149
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 91.2 bits (227), Expect = 2e-22
Identities = 32/152 (21%), Positives = 55/152 (36%), Gaps = 14/152 (9%)
Query: 113 VHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVS 172
VH Q L LF+ L+EL+ V G Y+ R+GE Y + +G V++
Sbjct: 9 VHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIYR 68
Query: 173 G-----ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYY 227
E +L E + F E + T A ++ S LF + ++
Sbjct: 69 LTPEGQEKILEVTNERNTFAEAMM--FMDTPNYVATAQAVVPSQLFRFSNKAYLRQLQDN 126
Query: 228 PNAQEVLKKKARQLIKENAARERVSQPKLSTM 259
A L+ + + R ++ T+
Sbjct: 127 TPL-------ALALLAKLSTRLHQRIDEIETL 151
>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 = 95.0 bits (235), Expect = 1e-21
Identities = 39/196 (19%), Positives = 75/196 (38%), Gaps = 12/196 (6%)
Query: 78 PPTPSSSTTLSSSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVL 137
P ++ S SS + L+ PL+ ++ +++ L V+ F+ LLR++ L
Sbjct: 5 IPMVAAHAAHSQSSAEWIACLDKRPLE-RSSEDVDIIFTRLKGVKAFEKFHPNLLRQICL 63
Query: 138 KLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVSGET-------VLATLTEGSVFGEIS 190
G + R+G++G Y V G + V ET + TL G+ FGE
Sbjct: 64 CGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE-- 121
Query: 191 LLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEVLKKKARQLIKENAARER 250
++ R A + + S L + ++D E Y L +++ + +R
Sbjct: 122 --SILDNTPRHATIVTRESSELLRIEQEDFKALWEKYRQYMAGLLAPPYGVMETGSNNDR 179
Query: 251 VSQPKLSTMDASSVLL 266
+ + +
Sbjct: 180 IPDKENVPSEKILRAG 195
Score = 83.8 bits (206), Expect = 6e-18
Identities = 37/220 (16%), Positives = 77/220 (35%), Gaps = 6/220 (2%)
Query: 23 EQVRGDIESGVDEDEEYHDSDSEKERRERFIQERIRHLAHVFTERAQKIKRILDFPPTPS 82
Q G + +++ H + + + ++ K+ D +
Sbjct: 244 TQAVGMWQVLLEDGVLNHVDQERHFQDKYLFYRFLDDEREDAPLPTEEEKKECDEELQDT 303
Query: 83 SSTTLSSSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPV 142
+ +++ P +T + + L ++ + REL L
Sbjct: 304 MLLLSQMGPDAHMRMILRKPPGQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFE 363
Query: 143 LYLPGD-YICRKGEVGKEMYIVKTGQVQV-VSGETVLATLTEGSVFGEISLLALAGTNRR 200
+ G + +GE G YI+ G V V + G+ V+ TL EG FG+++L+ R
Sbjct: 364 SHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALV---NDAPR 420
Query: 201 TADVRSH-GFSNLFVLNKDDLNEAIEYYPNAQEVLKKKAR 239
A + + ++K+D N + LK+ +
Sbjct: 421 AASIVLREDNCHFLRVDKEDFNRILRDVEANTVRLKEHDQ 460
>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 = 88.2 bits (219), Expect = 2e-21
Identities = 20/119 (16%), Positives = 41/119 (34%), Gaps = 5/119 (4%)
Query: 106 KTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLY-LPGDYICRKGEVGKEMYIVK 164
D I ++ + ++ F + ++ REL + + G I G+ Y++
Sbjct: 6 SGDDDIEQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVIL 65
Query: 165 TGQVQVVSGETVLATLTEGSVFGEISLLALAGTNRRTADVRS-HGFSNLFVLNKDDLNE 222
G V++ + + L G+ FG L VR+ + + D
Sbjct: 66 NGTVEISHPDGKVENLFMGNSFGITPTL---DKQYMHGIVRTKVDDCQFVCIAQQDYWR 121
>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 = 91.9 bits (228), Expect = 3e-21
Identities = 29/143 (20%), Positives = 66/143 (46%), Gaps = 3/143 (2%)
Query: 89 SSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGD 148
+S + + K++ + ++ + + ++ + + ++E+V + PV Y
Sbjct: 12 MASIEGRGSMQAFRKFTKSERSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDS 71
Query: 149 YICRKGEVGKEMYIVKTGQVQVVSGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHG 208
I ++G+VG +Y+++ G+V+V L T+ G VFGE LA+ RTA V++
Sbjct: 72 CIIKEGDVGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFGE---LAILYNCTRTATVKTLV 128
Query: 209 FSNLFVLNKDDLNEAIEYYPNAQ 231
L+ +++ + +
Sbjct: 129 NVKLWAIDRQCFQTIMMRTGLIK 151
Score = 89.6 bits (222), Expect = 1e-20
Identities = 38/139 (27%), Positives = 58/139 (41%), Gaps = 9/139 (6%)
Query: 114 HIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV-- 171
+++ L V FQ E +L +L L Y G+YI R+G G +I+ G+V V
Sbjct: 155 YMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGKVNVTRE 214
Query: 172 ----SGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYY 227
L TL +G FGE +L G + RTA+V + V+++D I
Sbjct: 215 DSPNEDPVFLRTLGKGDWFGEKALQ---GEDVRTANVIAAEAVTCLVIDRDSFKHLIGGL 271
Query: 228 PNAQEVLKKKARQLIKENA 246
+ + A K A
Sbjct: 272 DDVSNKAYEDAEAKAKYEA 290
>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 = 84.3 bits (208), Expect = 1e-18
Identities = 31/137 (22%), Positives = 54/137 (39%), Gaps = 12/137 (8%)
Query: 113 VHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVS 172
++ + LSKV + + D+ + L PV + G I +GE G E +I+ G V+
Sbjct: 154 MYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQ 213
Query: 173 G------ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEY 226
+ L FGEI+LL + A V + G L++ +
Sbjct: 214 RRSENEEFVEVGRLGPSDYFGEIALL---MNRPKAATVVARGPLKCVKLDRPRFERVLG- 269
Query: 227 YPNAQEVLKKKARQLIK 243
++LK+ +Q
Sbjct: 270 --PCSDILKRNIQQYNS 284
Score = 75.4 bits (185), Expect = 1e-15
Identities = 28/148 (18%), Positives = 60/148 (40%), Gaps = 4/148 (2%)
Query: 85 TTLSSSSEDENKILN-NLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVL 143
+S+ E + + K + + + K LF D+ ++ + PV
Sbjct: 7 GAISAEVYTEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAMFPVS 66
Query: 144 YLPGDYICRKGEVGKEMYIVKTGQVQVVSGETVLATLTEGSVFGEISLLALAGTNRRTAD 203
++ G+ + ++G+ G Y++ G++ V ++ EG FGE LAL R A
Sbjct: 67 FIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFGE---LALIYGTPRAAT 123
Query: 204 VRSHGFSNLFVLNKDDLNEAIEYYPNAQ 231
V++ L+ +++D + +
Sbjct: 124 VKAKTNVKLWGIDRDSYRRILMGSTLRK 151
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 84.1 bits (208), Expect = 3e-18
Identities = 41/133 (30%), Positives = 59/133 (44%), Gaps = 5/133 (3%)
Query: 114 HIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVSG 173
+ Q ++ V LFQ A+L E+V LR G ICR GE G M+ V G V V +
Sbjct: 226 NWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATP 285
Query: 174 ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEV 233
V L G+ FGE++L+ R+A V + +L L+ D P E+
Sbjct: 286 NPV--ELGPGAFFGEMALI---SGEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEI 340
Query: 234 LKKKARQLIKENA 246
+K A + A
Sbjct: 341 FRKTALERRGAAA 353
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 83.2 bits (205), Expect = 4e-18
Identities = 25/133 (18%), Positives = 54/133 (40%), Gaps = 7/133 (5%)
Query: 112 NVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV 171
++ L+ + +FQ C L L ++P+ G + R+GE ++ +G +V
Sbjct: 9 GARVEDLAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSAEVS 68
Query: 172 ----SGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYY 227
G ++A G + GEI+LL + R+A V + + + +
Sbjct: 69 HVGDDGVAIIARALPGMIVGEIALLR---DSPRSATVTTIEPLTGWTGGRGAFATMVHIP 125
Query: 228 PNAQEVLKKKARQ 240
+ +L+ ++
Sbjct: 126 GVGERLLRTARQR 138
>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 = 81.2 bits (201), Expect = 4e-18
Identities = 36/183 (19%), Positives = 71/183 (38%), Gaps = 24/183 (13%)
Query: 114 HIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV-- 171
+ L + LFQ+ E +RE + + + P + + + G+ +++V TG V+V
Sbjct: 4 RLDDLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSRV 63
Query: 172 --SG-ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYP 228
G E VL + V GE ++L R+A VR+ +L+++ + +P
Sbjct: 64 SLGGRERVLGDIYAPGVVGETAVL---AHQERSASVRALTPVRTLMLHREHFELILRRHP 120
Query: 229 NAQEVLKKKARQLIKENAARERVSQPKLSTMDASSV---------LLDRKGEEPKQAPKL 279
L + A R +L ++ L ++ P++
Sbjct: 121 RV-------LWNLAEMLARRVTFLNDELIAFGQNTEAALTHVFANLYRQRLAAGVPQPEV 173
Query: 280 LPI 282
LP+
Sbjct: 174 LPL 176
>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 = 80.0 bits (198), Expect = 1e-17
Identities = 35/154 (22%), Positives = 70/154 (45%), Gaps = 15/154 (9%)
Query: 116 QTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV---- 171
+ L++ +FQ + + + L +L+PV + G + +GE G +YI+ +G+V++
Sbjct: 6 EILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAP 65
Query: 172 SG-ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNA 230
G E +L + +FGE+S+ RT+ + +++D L I P
Sbjct: 66 DGRENLLTIMGPSDMFGELSIF---DPGPRTSSATTITEVRAVSMDRDALRSWIADRPEI 122
Query: 231 QEVLKKKARQLIKENAARERVSQPKLSTMDASSV 264
+ QL++ A R R + L+ + + V
Sbjct: 123 -------SEQLLRVLARRLRRTNNNLADLIFTDV 149
>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 = 80.1 bits (198), Expect = 2e-17
Identities = 31/184 (16%), Positives = 63/184 (34%), Gaps = 24/184 (13%)
Query: 114 HIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV-- 171
+ + + L + + L + Y + +GE + +Y + G V V+
Sbjct: 44 AMADIGSMVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIK 103
Query: 172 --SG-ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYP 228
G E +L+ L +G GE+ L R+A VR+ + ++ + I+ P
Sbjct: 104 DEEGKEMILSYLNQGDFIGELGL--FEEGQERSAWVRAKTACEVAEISYKKFRQLIQVNP 161
Query: 229 NAQEVLKKKARQLIKENAARERVSQPKLSTMDASSV----------LLDRKGEEPKQAPK 278
+ +L + A R +V+ K+ + V L +
Sbjct: 162 DI-------LMRLSAQMARRLQVTSEKVGNLAFLLVTGRIAQTLLNLAKQPDAMTHPDGM 214
Query: 279 LLPI 282
+ I
Sbjct: 215 QIKI 218
>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 = 81.7 bits (201), Expect = 2e-17
Identities = 21/142 (14%), Positives = 55/142 (38%), Gaps = 17/142 (11%)
Query: 114 HIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV-- 171
+ + + + + + ++V + +Y G+ I +G++ +IV++G+V++
Sbjct: 265 YESFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVESGEVKITMK 324
Query: 172 ---------SGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNE 222
+G +A G FGE++L+ R A + G ++
Sbjct: 325 RKGKSEVEENGAVEIARCFRGQYFGELALV---TNKPRAASAHAIGTVKCLAMDVQAFER 381
Query: 223 AIEYYPNAQEVLKKKARQLIKE 244
+ E++K+ ++
Sbjct: 382 LLGPCM---EIMKRNIATYEEQ 400
Score = 80.2 bits (197), Expect = 8e-17
Identities = 34/225 (15%), Positives = 71/225 (31%), Gaps = 12/225 (5%)
Query: 16 LRKESVPEQVRGDIESGVDEDEEYHDSDSEKERRERFIQERIRHLAHVFTERAQKIKRIL 75
++ R E D + F +E +R + E
Sbjct: 40 QQENERKGAARFGHEGRTWGDAGAAAGGGIPSKGVNFAEEPMRSDSENGEEEEAAEAGAF 99
Query: 76 DFPPTPSSSTTLSSSSE-----DENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEA 130
+ P + S +E +E + + KTD N + + LF++ D
Sbjct: 100 NAPVINRFTRRASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPE 159
Query: 131 LLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----SGETVLATLTEGSVF 186
+ +++ + L G+++ +G+ G Y++ G + + F
Sbjct: 160 QMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSF 219
Query: 187 GEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQ 231
GE LAL + A + + L+ L++ I +
Sbjct: 220 GE---LALMYNTPKAATITATSPGALWGLDRVTFRRIIVKNNAKK 261
>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 = 78.8 bits (195), Expect = 3e-17
Identities = 37/152 (24%), Positives = 61/152 (40%), Gaps = 15/152 (9%)
Query: 118 LSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----SG 173
+ LF + + + LY G I +G++G+ +Y+V +G+V++ G
Sbjct: 1 MKGSPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGG 60
Query: 174 -ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQE 232
E LA L G +FGE+SLL R+A + + L L ++D I P
Sbjct: 61 QERTLALLGPGELFGEMSLL---DEGERSASAVAVEDTELLALFREDYLALIRRLPLV-- 115
Query: 233 VLKKKARQLIKENAARERVSQPKLSTMDASSV 264
A L A R R + +L +
Sbjct: 116 -----AHNLAALLARRLREADLELDLLSFEEA 142
>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 = 81.3 bits (200), Expect = 3e-17
Identities = 37/202 (18%), Positives = 76/202 (37%), Gaps = 9/202 (4%)
Query: 36 DEEYHDSDSEKERRERFIQERIRHLAHVFTERAQKIKRILDFPPTPSSS-----TTLSSS 90
+ E+ E+ +I ++ + + PP P +S+
Sbjct: 44 ERPMKFLREHFEKLEKEENRQILARQKSNSQSDSHDEEVSPTPPNPVVKARRRRGGVSAE 103
Query: 91 SEDENKILN-NLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDY 149
E ++ + K + + +SK LF D+ ++ + PV ++ G+
Sbjct: 104 VYTEEDAVSYVRKVIPKDYKTMTALAKAISKNVLFAHLDDNERSDIFDAMFPVTHIAGET 163
Query: 150 ICRKGEVGKEMYIVKTGQVQVVSGETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGF 209
+ ++G G Y+V G+V V + ++EG FGE LAL R A V++
Sbjct: 164 VIQQGNEGDNFYVVDQGEVDVYVNGEWVTNISEGGSFGE---LALIYGTPRAATVKAKTD 220
Query: 210 SNLFVLNKDDLNEAIEYYPNAQ 231
L+ +++D + +
Sbjct: 221 LKLWGIDRDSYRRILMGSTLRK 242
Score = 80.5 bits (198), Expect = 5e-17
Identities = 33/144 (22%), Positives = 57/144 (39%), Gaps = 12/144 (8%)
Query: 103 LKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYI 162
L T ++ + LSKV + + ++ + L PV + G+ I +GE G + YI
Sbjct: 235 LMGSTLRKRKMYEEFLSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYI 294
Query: 163 VKTGQVQVVSG------ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLN 216
+ G V+ + L FGEI+LL R A V + G L+
Sbjct: 295 ITEGTASVLQRRSPNEEYVEVGRLGPSDYFGEIALL---LNRPRAATVVARGPLKCVKLD 351
Query: 217 KDDLNEAIEYYPNAQEVLKKKARQ 240
+ + E+LK+ ++
Sbjct: 352 RPRFERVLG---PCSEILKRNIQR 372
>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 = 2e-16
Identities = 39/184 (21%), Positives = 67/184 (36%), Gaps = 22/184 (11%)
Query: 112 NVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV 171
VH Q L LF+ L+EL+ V G Y+ R+GE Y + +G V++
Sbjct: 5 RVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIY 64
Query: 172 ----SG-ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEY 226
G E +L E + F E + T A ++ S LF + ++
Sbjct: 65 RLTPEGQEKILEVTNERNTFAEAMM--FMDTPNYVATAQAVVPSQLFRFSNKAYLRQLQD 122
Query: 227 YPNAQEVLKKKARQLIKENAARERVSQPK---LSTMDAS----SVLLDRKGEEPKQAPKL 279
A L+ + + R + LS +A+ LL P + ++
Sbjct: 123 NTPL-------ALALLAKLSTRLHQRIDEIETLSLKNATHRVVRYLLTLAAHAPGENCRV 175
Query: 280 -LPI 282
+P+
Sbjct: 176 EIPV 179
>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 = 76.5 bits (189), Expect = 2e-16
Identities = 25/186 (13%), Positives = 57/186 (30%), Gaps = 25/186 (13%)
Query: 114 HIQTLSKVQLFQDCDEALLRELV--LKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV 171
TL ++ LFQ ++ +KL + + G+ I + G ++ + G++ +V
Sbjct: 16 MFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISIV 75
Query: 172 ----SG-ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEY 226
TV+ + + SL + +H + ++K + +
Sbjct: 76 TNAKENIYTVIEQIEAPYLIEPQSL--FGMNTNYASSYVAHTEVHTVCISKAFVLSDLFR 133
Query: 227 YPNAQEVLKKKARQLIKENAARERVSQPKLSTMDASSV-------LLDRKGEEPKQAPKL 279
Y + + R + +L + L + Q K
Sbjct: 134 YDIF-------RLNYMNIVSNRAQNLYSRLWDEPTLDLKSKIIRFFLSHCEK--PQGEKT 184
Query: 280 LPIVMQ 285
+ M
Sbjct: 185 FKVKMD 190
>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 = 76.1 bits (188), Expect = 2e-16
Identities = 15/152 (9%), Positives = 54/152 (35%), Gaps = 14/152 (9%)
Query: 118 LSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----SG 173
+ ++ L++L+ + +++ G+ + + + +++ I+ G ++ +G
Sbjct: 1 MGSDKIHHHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENG 60
Query: 174 -ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQE 232
+ + + + + R +V + S + + K+ + +
Sbjct: 61 KTLEIDEIKPVQIIASGFI--FSSEPRFPVNVVAGENSKILSIPKEVFLDLLMKDREL-- 116
Query: 233 VLKKKARQLIKENAARERVSQPKLSTMDASSV 264
+K+ + RV KL + ++
Sbjct: 117 -----LLFFLKDVSEHFRVVSEKLFFLTTKTL 143
>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 = 73.4 bits (181), Expect = 2e-15
Identities = 31/177 (17%), Positives = 61/177 (34%), Gaps = 24/177 (13%)
Query: 121 VQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----SG-ET 175
+ L + + L + Y + +GE + +Y + G V V+ G E
Sbjct: 1 MVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEM 60
Query: 176 VLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEVLK 235
+L+ L +G GE+ L R+A VR+ + ++ + I+ P+
Sbjct: 61 ILSYLNQGDFIGELGL--FEEGQERSAWVRAKTACEVAEISYKKFRQLIQVNPDI----- 113
Query: 236 KKARQLIKENAARERVSQPKLSTMDASSV----------LLDRKGEEPKQAPKLLPI 282
+L + A R +V+ K+ + V L + + I
Sbjct: 114 --LMRLSAQMARRLQVTSEKVGNLAFLDVTGRIAQTLLNLAKQPDAMTHPDGMQIKI 168
>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 = 73.1 bits (180), Expect = 3e-15
Identities = 26/195 (13%), Positives = 55/195 (28%), Gaps = 27/195 (13%)
Query: 114 HIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV-- 171
L + E + L+ + Y G+ + + E + +++V G V++
Sbjct: 9 QKAIARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVKLFRM 68
Query: 172 --SG-ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYP 228
+G E V++ T G FGE L + + + + P
Sbjct: 69 TPTGSEAVVSVFTRGESFGEAVAL---RNTPYPVSAEAVTPCEVMHIPSPVFVSLMRRDP 125
Query: 229 NAQEVLKKKARQLIKENAARERVSQPK---LSTMDAS----SVLLDRKGEEPKQAPKLLP 281
++ + L + LL+ + LP
Sbjct: 126 EI-------CISILATTFGHLHSLVAQLEQLKAQTGAQRVAEFLLELCDCDTGACEVTLP 178
Query: 282 IVMQVVPQNSMASKL 296
+ +A +L
Sbjct: 179 Y-----DKMLIAGRL 188
>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 = 70.0 bits (172), Expect = 4e-14
Identities = 24/153 (15%), Positives = 51/153 (33%), Gaps = 12/153 (7%)
Query: 117 TLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----S 172
T+ D + + Y + R G+ +Y V +G V ++
Sbjct: 12 TVRNATPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSIIAEEDD 71
Query: 173 G-ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQ 231
E VL G GE+ L ++ R +R+ L ++ + L + + +
Sbjct: 72 DRELVLGYFGSGEFVGEMGL--FIESDTREVILRTRTQCELAEISYERLQQLFQ--TSLS 127
Query: 232 EVLKKKARQLIKENAARERVSQPK---LSTMDA 261
+ + + + R + K L+ +D
Sbjct: 128 PDAPRILYAIGVQLSKRLLDTTRKASRLAFLDV 160
>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 = 67.6 bits (166), Expect = 2e-13
Identities = 27/145 (18%), Positives = 50/145 (34%), Gaps = 16/145 (11%)
Query: 128 DEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----SG-ETVLATLTE 182
L +L+ Y I G+ + ++ + G V ++ G E ++ L
Sbjct: 2 KLKHLDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNS 61
Query: 183 GSVFGEISLLA-LAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEVLKKKARQL 241
G FGE+ L R+A VR+ + ++ E + L
Sbjct: 62 GDFFGELGLFEKEGSEQERSAWVRAKVECEVAEISYAKFRELSQQDSEI-------LYTL 114
Query: 242 IKENAARERVSQPK---LSTMDASS 263
+ A R R + K L+ +D +
Sbjct: 115 GSQMADRLRKTTRKVGDLAFLDVTG 139
>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 = 65.7 bits (161), Expect = 1e-12
Identities = 19/177 (10%), Positives = 57/177 (32%), Gaps = 25/177 (14%)
Query: 121 VQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----SG-ET 175
++ +E L +++P + +G++ ++ + G+++++ G
Sbjct: 15 RDVWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFH 74
Query: 176 VLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEVLK 235
+ + G FG ++ + S + + + + ++ +
Sbjct: 75 ISRIVKPGQFFGMRPYF---AEETCSSTAIAVENSKVLAIPVEAIEALLKGNTSF----- 126
Query: 236 KKARQLIKENAARERVSQPK---LSTMDAS----SVLL---DRKGEEPKQAPKLLPI 282
R +K A ++ + L+ LL + G E A + +
Sbjct: 127 --CRYFLKALAKELGYAERRTVTLTQKHVRGRLAETLLILKENFGFENDGATLSIYL 181
>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 = 65.0 bits (159), Expect = 2e-12
Identities = 19/154 (12%), Positives = 48/154 (31%), Gaps = 23/154 (14%)
Query: 116 QTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV---S 172
L+ L + + ++ + R Y + +++VK+G+V+V
Sbjct: 4 MRLTDTNLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAYE 63
Query: 173 G-ETVLATLTEGSVFGEISLL-ALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNA 230
E LA L G +F + A + + + + + + +P
Sbjct: 64 DKEFTLAILEAGDIFCTHTRAFIQAMED-----------TTILYTDIRNFQNIVVEFPAF 112
Query: 231 QEVLKKKARQLIKENAARERVSQPKLSTMDASSV 264
+ ++K + S ++ +
Sbjct: 113 -------SLNMVKVLGDLLKNSLTIINGLVFKDA 139
>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 = 65.0 bits (159), Expect = 3e-12
Identities = 15/152 (9%), Positives = 40/152 (26%), Gaps = 18/152 (11%)
Query: 118 LSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----SG 173
+ LR + G + GE M + G++++ G
Sbjct: 11 CGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDG 70
Query: 174 -ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQE 232
E +L S+ G++ + + ++ L +
Sbjct: 71 SEKLLYYAGGNSLIGKLYPT------GNNIYATAMEPTRTCWFSEKSLRTVFRTDEDM-- 122
Query: 233 VLKKKARQLIKENAARERVSQPKLSTMDASSV 264
++ K + +++ M+ +
Sbjct: 123 -----IFEIFKNYLTKVAYYARQVAEMNTYNP 149
>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 = 62.7 bits (153), Expect = 2e-11
Identities = 26/154 (16%), Positives = 57/154 (37%), Gaps = 18/154 (11%)
Query: 116 QTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV---- 171
Q + +F+ +V I G+ + +Y + G V++
Sbjct: 25 QDKALANVFRQMATGAFPPVVETFER-----NKTIFFPGDPAERVYFLLKGAVKLSRVYE 79
Query: 172 SG-ETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNA 230
+G E +A L E SVFG +SLL + R + L + + +A++ P
Sbjct: 80 AGEEITVALLRENSVFGVLSLLT-GNKSDRFYHAVAFTPVELLSAPIEQVEQALKENPEL 138
Query: 231 QEVLKKKARQLIKENAARERVSQPKLSTMDASSV 264
+ +++ ++R ++ + T+ +
Sbjct: 139 -------SMLMLRGLSSRILQTEMMIETLAHRDM 165
>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 = 61.5 bits (150), Expect = 3e-11
Identities = 18/146 (12%), Positives = 49/146 (33%), Gaps = 11/146 (7%)
Query: 115 IQTLSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV--- 171
+ + L+ D + A + + L G I + +VK+GQ++
Sbjct: 2 MSFENYFPLWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQLRTYILS 61
Query: 172 -SG-ETVLATLTEG--SVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYY 227
G E L L + + ++ + + + + ++L+++ + ++
Sbjct: 62 DEGREITLYRLFDMDMCLLSASCIM---RSIQFEVTIEAEKDTDLWIIPAEIYKGIMKDS 118
Query: 228 PN-AQEVLKKKARQLIKENAARERVS 252
A + A + E++
Sbjct: 119 APVANYTNELMATRFSDVMWLIEQIM 144
>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 = 61.1 bits (149), Expect = 4e-11
Identities = 18/152 (11%), Positives = 40/152 (26%), Gaps = 23/152 (15%)
Query: 118 LSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVS----G 173
+ + R ++ G +C +++V G+++V
Sbjct: 2 PPRFNIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEER 61
Query: 174 ETVLATLTEGSVFGEISLL-ALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQE 232
E L LT G +F S A + + + + ++ P+
Sbjct: 62 EISLFYLTSGDMFCMHSGCLVEATER-----------TEVRFADIRTFEQKLQTCPSM-- 108
Query: 233 VLKKKARQLIKENAARERVSQPKLSTMDASSV 264
A LI + + +
Sbjct: 109 -----AWGLIAILGRALTSCMRTIEDLMFHDI 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 = 61.4 bits (148), Expect = 2e-10
Identities = 59/407 (14%), Positives = 112/407 (27%), Gaps = 129/407 (31%)
Query: 28 DIESGVDEDEEYHD---SDSEKERRERFI------QERIRHLAHVFTERAQKI------K 72
D+ + EE S R QE + F E +I
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM---VQKFVEEVLRINYKFLMS 96
Query: 73 RILDFPPTPSSSTTLSSSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALL 132
I PS T + D ++ N+ + K +V S++Q + L
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRD--RLYNDNQVFAKYNV---------SRLQPYLK-----L 140
Query: 133 RELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVSGETVLATLT----------E 182
R+ +L+LRP + G +G SG+T +A +
Sbjct: 141 RQALLELRP-----AKNVLIDGVLG--------------SGKTWVALDVCLSYKVQCKMD 181
Query: 183 GSVF----GEIS--------LLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEY---- 226
+F + L L RS SN+ L + +
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK-LRIHSIQAELRRLLKS 240
Query: 227 --YPNA---------QEVLKK---KARQLI----KENAARERVSQPK-LSTMDASSVLLD 267
Y N + + L+ K+ + +S S L
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 268 RKGEE-------------PKQAPKLLPIVMQVVPQNSMASKLLRCGSKSLNKRPHRRVNR 314
+ + P++ P + S+ ++ +R G + + H ++
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTTNPRRL------SIIAESIRDGLATWDNWKHVNCDK 354
Query: 315 SASADTYFHPKQQRRLLHQTPTGHNNSFECQVTVHREDIHESHITSE 361
+ + L P + F+ +++V HI +
Sbjct: 355 LTTI-------IESSLNVLEPAEYRKMFD-RLSVFPPSA---HIPTI 390
Score = 34.4 bits (78), Expect = 0.057
Identities = 21/117 (17%), Positives = 41/117 (35%), Gaps = 34/117 (29%)
Query: 39 YHDSDSEKERRE----------RFIQERIRHLAHVFTERAQKI----------KRILDFP 78
+H + E R RF++++IRH + + + I D
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDND 538
Query: 79 PTPSSSTTLSSSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQL-FQDCDEALLRE 134
P N IL+ LP K++ ++ + + +++ DEA+ E
Sbjct: 539 PKY---------ERLVNAILDFLP-KIEENLICSKY---TDLLRIALMAEDEAIFEE 582
>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 = 58.5 bits (142), Expect = 3e-10
Identities = 13/146 (8%), Positives = 41/146 (28%), Gaps = 15/146 (10%)
Query: 126 DCDEALLRELVLK--LRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVV----SG-ETVLA 178
+ ++ + ++P + + I + + + + G ++ +G L
Sbjct: 3 NAQAEEFKKYLETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQ 62
Query: 179 TLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEVLKKKA 238
V + +V S + +V+ ++L E +
Sbjct: 63 YYKGAFVIMSGFIDTETSVGYYNLEVISEQ-ATAYVIKINELKELLSKNLTH-------F 114
Query: 239 RQLIKENAARERVSQPKLSTMDASSV 264
+ + + S K + +
Sbjct: 115 FYVFQTLQKQVSYSLAKFNDFSINGK 140
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 49.9 bits (120), Expect = 2e-07
Identities = 27/165 (16%), Positives = 47/165 (28%), Gaps = 35/165 (21%)
Query: 135 LVLKLRPVLYLPGDYICRKGEVGK--EMYIVKTGQVQVV----SG-ETVLATLTEGSVFG 187
+ V + GD I G G Y V G V++ G L + G FG
Sbjct: 1 MTQVRETVSFKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFG 60
Query: 188 EISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEVLKKKARQLIKENAA 247
E +L R + L L ++ E + L + +
Sbjct: 61 EEALF----GQERIYFAEAATDVRLEPLPENPDPEL--------------LKDLAQHLSQ 102
Query: 248 RERVSQPK---LSTMDAS----SVLL---DRKGEEPKQAPKLLPI 282
+ + L+T + LL + ++ +L
Sbjct: 103 GLAEAYRRIERLATQRLKNRMAAALLELSETPLAHEEEGKVVLKA 147
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 49.1 bits (118), Expect = 3e-07
Identities = 25/151 (16%), Positives = 48/151 (31%), Gaps = 26/151 (17%)
Query: 144 YLPGDYICRKGEVGKEMYIVKTGQVQVV----SG-ETVLATLTEGSVFGEISLLALAGTN 198
+ + I +GE + +Y ++ G V+VV G L + G FGE +L
Sbjct: 4 FARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEALE----GK 59
Query: 199 RRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEVLKKKARQLIKENAARERVSQPKLST 258
+ + + L ++ V + ARQ+ + + L T
Sbjct: 60 AYRYTAEAMTEAVVQGLEPRAMDHEA-----LHRVARNLARQM---RRVQAYEAH--LQT 109
Query: 259 MDAS----SVLL---DRKGEEPKQAPKLLPI 282
+ LL D + + +
Sbjct: 110 GELRARIARYLLFLADTPLSARDRQGIYVTV 140
>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 = 51.0 bits (121), Expect = 4e-07
Identities = 38/175 (21%), Positives = 71/175 (40%), Gaps = 12/175 (6%)
Query: 88 SSSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLRELVLKLRPVLYLPG 147
S SS + L+ PL+ ++ +++ L V+ F+ LLR++ L G
Sbjct: 15 SQSSAEWIACLDKRPLE-RSSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKG 73
Query: 148 DYICRKGEVGKEMYIVKTGQVQVVSGET-------VLATLTEGSVFGEISLLALAGTNRR 200
+ R+G++G Y V G + V ET + TL G+ FGE ++ R
Sbjct: 74 ITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE----SILDNTPR 129
Query: 201 TADVRSHGFSNLFVLNKDDLNEAIEYYPNAQEVLKKKARQLIKENAARERVSQPK 255
A + + S L + ++D E Y L +++ + +R+ +
Sbjct: 130 HATIVTRESSELLRIEQEDFKALWEKYRQYMAGLLAPPYGVMETGSNNDRIPDKE 184
Score = 39.8 bits (92), Expect = 0.001
Identities = 29/99 (29%), Positives = 45/99 (45%), Gaps = 5/99 (5%)
Query: 97 ILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEALLREL--VLKLRPVLYLPGDYICRKG 154
IL P + +T + + L ++ + REL VL G + +G
Sbjct: 319 ILRKPPGQ-RTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESH-AKGGTVLFNQG 376
Query: 155 EVGKEMYIVKTGQVQVV-SGETVLATLTEGSVFGEISLL 192
E G YI+ G V VV G+ V+ TL EG FG+++L+
Sbjct: 377 EEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALV 415
>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 = 45.8 bits (108), Expect = 2e-05
Identities = 71/470 (15%), Positives = 140/470 (29%), Gaps = 157/470 (33%)
Query: 8 NETEANTWLRKESVPEQVRGDIESGVDEDEEYH--------DSDSEKERRERFIQERIRH 59
+ E + + + V + E+ E + H ++D+ + + I+ I
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT- 128
Query: 60 LAHVFTERAQKIKRILDFPPTPSSSTTLSSSSEDENKIL--------NNLPLK-L----- 105
A + +R S+S + E +++ + + L
Sbjct: 129 -ARIMAKRP---------FDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ 178
Query: 106 --KTDVA--INVHIQTLSK-VQLFQDCDEALLRELVLK--LR------PVLYL------- 145
V I +TLS+ ++ D ++ + L + L YL
Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC 238
Query: 146 P-------GDYI--CRK-----GEVGKEMYIVKTGQVQ-VVSGETVLATLTEGSVFGEIS 190
P Y+ + GE+ + TG Q +V+ +A F
Sbjct: 239 PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA-TGHSQGLVTA-VAIAETDSWESFFVSV 296
Query: 191 LLALA-----GTNRRTADVRSHG-FSNLFV------------------------LNKDDL 220
A+ G VR + + N + L ++ +
Sbjct: 297 RKAITVLFFIG-------VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQV 349
Query: 221 NEAIE----YYPNAQEV---LKKKARQ---------LIKENAARERVSQPKLSTMDASSV 264
+ + + P ++V L A+ L N + P S +D S +
Sbjct: 350 QDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP--SGLDQSRI 407
Query: 265 LL-DRKGEEPKQAPKLLPIVMQVVPQNSMASKLLRCGSKSLNKRPHRRVNRSASADTYFH 323
+RK K + + LP+ P + S LL S +NK + F+
Sbjct: 408 PFSERK---LKFSNRFLPV---ASPFH---SHLLVPASDLINK-------DLVKNNVSFN 451
Query: 324 PKQQRRLLHQTPTGHN----------NSFECQVT--VHREDIHE---SHI 358
K + ++ T G + +C + V E + +HI
Sbjct: 452 AKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHI 501
Score = 43.9 bits (103), Expect = 7e-05
Identities = 50/210 (23%), Positives = 74/210 (35%), Gaps = 69/210 (32%)
Query: 13 NTWLRKESVPEQVRGDIESGVDEDEEYHDSDSEKERRERFIQERIRHLAHVFTERAQKIK 72
N LRK P SG+D Q RI F+ER K+K
Sbjct: 390 NLTLRKAKAP--------SGLD-------------------QSRIP-----FSER--KLK 415
Query: 73 RILDFPP--TPSSSTTLSSSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQLFQDCDEA 130
F P +P S L +S+ I +L K +V+ N + ++ ++ D +
Sbjct: 416 FSNRFLPVASPFHSHLLVPASD---LINKDLV---KNNVSFNAK--DI-QIPVYDTFDGS 466
Query: 131 LLRELVLKLRPVLYLPGDYICR------KGEVGKEMYIVKTGQVQVVSGETVLATLT--- 181
LR L + + D I R K +I+ G SG L LT
Sbjct: 467 DLRVLSGSISERIV---DCIIRLPVKWETTTQFKATHILDFGP-GGASG---LGVLTHRN 519
Query: 182 -EGSVFGEISLLALAGT-NRRTADVRSHGF 209
+G+ I +AGT + D +GF
Sbjct: 520 KDGTGVRVI----VAGTLDINPDD--DYGF 543
Score = 33.9 bits (77), Expect = 0.098
Identities = 46/277 (16%), Positives = 80/277 (28%), Gaps = 118/277 (42%)
Query: 37 EEYHDSDSEKERRER----------F-IQERIRH----LAHVFT-ERAQKIK-------- 72
+ Y S + ++ R F I + + + L F E+ ++I+
Sbjct: 1634 DLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIF 1693
Query: 73 -RILD--------FPPTPSSSTTLSSSSEDENKILN---NL-PLKLKTDVAINVHIQTLS 119
I+D F ST+ + SE +L+ P + A + L
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSYTFRSEKG--LLSATQFTQPALTLMEKAA---FEDLK 1748
Query: 120 KVQLFQDCD--------E--AL--------LRELV--LKLRPVLYLPGDYI---CRKGEV 156
L E AL + LV + R G + + E+
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR------GMTMQVAVPRDEL 1802
Query: 157 GKEMY---------------------IV-----KTGQV-----------QVV-SGETV-L 177
G+ Y +V +TG + Q V +G+ L
Sbjct: 1803 GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL 1862
Query: 178 ATLTEGSVFGE-----ISLLALAGTNRRTADVRSHGF 209
T+T V I ++ L + +V H F
Sbjct: 1863 DTVTN--VLNFIKLQKIDIIELQKS-LSLEEVEGHLF 1896
Score = 31.2 bits (70), Expect = 0.67
Identities = 52/363 (14%), Positives = 98/363 (26%), Gaps = 118/363 (32%)
Query: 20 SVP-------EQVRGDIESGVDEDEEYHDSD----SEKERRERFIQERIRHLAHVFTERA 68
VP Q++ + E E +D + E +F+ +++ +
Sbjct: 21 LVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG----YVSSLVEPSK 76
Query: 69 QK-----IKRILDFPPTPSSSTTLSSSSEDENKILNNLPLKLKTDVAINVHIQTLSKVQL 123
+ L E EN L ++H L+ +L
Sbjct: 77 VGQFDQVLNLCLT---------------EFENCYLEG----------NDIH--ALA-AKL 108
Query: 124 FQDCDEALL-RELVLK---------LRPVLYLPGDYICRKGEVGK-EMYIVKTGQVQVVS 172
Q+ D L+ + ++K RP + R G ++ + GQ
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ----- 163
Query: 173 GETV-----LATLTE------GSVFGEIS--LLALAGTNRRTADVRSHGFSNLFVLNKDD 219
G T L L + G + + L L T V + G + L L
Sbjct: 164 GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS 223
Query: 220 LNEAIEYYPNAQEVLKKKARQLIKENAARERVSQPKLSTMDASSVLLDRK--GEEPKQAP 277
+Y + +S P + + + ++ K G P +
Sbjct: 224 NTPDKDYLLSIP-------------------ISCPLIGVIQLAHYVVTAKLLGFTPGELR 264
Query: 278 KLLP--------IVMQVVPQNSM--------ASKLLR----CGSKSLNKRPHRRVNRSAS 317
L +V V + K + G + P+ + S
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL 324
Query: 318 ADT 320
D+
Sbjct: 325 EDS 327
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 41.7 bits (98), Expect = 1e-04
Identities = 15/149 (10%), Positives = 39/149 (26%), Gaps = 11/149 (7%)
Query: 118 LSKVQLFQDCDEALLRELVLKLRPVLYLPGDYICRKGEVGKEMYIVKTGQVQVVS----- 172
++ ++ F + L + + + + GE+ + Y V G +++
Sbjct: 9 INHIRKFIFLTDEDAGTLSAFFQLKKVRKKETLLKTGEICRINYFVVKGCLRLFFIDEKG 68
Query: 173 GETVLATLTEGSVFGEISLLALAGTNRRTADVRSHGFSNLFVLNKDDLNEAIEYYPNAQE 232
E E + A ++S L + + E P +
Sbjct: 69 IEQTTQFAIENWWLSDYM--AFQKQQPADFYIQSVENCELLSITYTEQENLFERIPALER 126
Query: 233 VLKKKARQLIKENAARERVSQPKLSTMDA 261
+ ++ R +
Sbjct: 127 YFRLVYQKSFAAAQLRSKF----QHMYSK 151
>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 = 37.1 bits (85), Expect = 0.007
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 4/90 (4%)
Query: 106 KTDVAINVHIQTLSKVQLFQDCDEALLREL--VLKLRPVLYLPGDYICRKGEVGKEMYIV 163
+T + + L ++ + REL VL G + +GE G YI+
Sbjct: 22 RTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESH-AKGGTVLFNQGEEGTSWYII 80
Query: 164 KTGQVQVV-SGETVLATLTEGSVFGEISLL 192
G V VV G+ V+ TL EG FG+++L+
Sbjct: 81 LKGSVNVVIYGKGVVCTLHEGDDFGKLALV 110
>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase;
1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A
Length = 370
Score = 30.1 bits (68), Expect = 1.1
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 217 KDDLNEAIEYYPNAQEVLKK--KARQLIKENAARER 250
DL +A E P + + + K +Q IK +E+
Sbjct: 327 LADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK 362
>3dli_A Methyltransferase; PSI-II, NYSGXRC, structural genomics, protein
structure initiative; 2.46A {Archaeoglobus fulgidus}
Length = 240
Score = 28.3 bits (63), Expect = 3.1
Identities = 9/43 (20%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 37 EEYHDSD--SEKERRERFIQERIRHLAHVFTERAQKIKRILDF 77
+ H SD E + R +E ++ + + +R+LD
Sbjct: 6 TDIHTSDYYFLFEEKFRGSRELVKARLRRYIPYFKGCRRVLDI 48
>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 = 27.6 bits (60), Expect = 3.9
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 8/31 (25%)
Query: 249 ERVSQPKLSTMDASSVLLDRKGEEPKQAPKL 279
E+ + KL +S+ K AP L
Sbjct: 18 EKQALKKLQ----ASL----KLYADDSAPAL 40
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 27.7 bits (61), Expect = 4.4
Identities = 5/17 (29%), Positives = 8/17 (47%), Gaps = 1/17 (5%)
Query: 147 GDYICRK-GEVGKEMYI 162
GD +C G V + +
Sbjct: 41 GDVVCALCGLVLSDKLV 57
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 4.5
Identities = 7/59 (11%), Positives = 26/59 (44%), Gaps = 5/59 (8%)
Query: 20 SVPEQVRGDIESGVDEDEEY----HDSDS-EKERRERFIQERIRHLAHVFTERAQKIKR 73
+ +++ + ES EE + D+ K + + ++ + L +++++++
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEK 133
Score = 27.4 bits (60), Expect = 5.0
Identities = 13/71 (18%), Positives = 22/71 (30%), Gaps = 21/71 (29%)
Query: 6 RNNETEA-NTWLRKESVPEQVRGD----------IESGVDEDEEYHDSDSEKERR----- 49
E E+ W R+E D E + EE++ SE+ +
Sbjct: 80 LTQEPESIRKW-REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN 138
Query: 50 ----ERFIQER 56
+ F Q+
Sbjct: 139 RIADKAFYQQP 149
>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156,
PSI-biology, midwest center structural genomics, MCSG;
2.41A {Caenorhabditis elegans}
Length = 162
Score = 27.3 bits (61), Expect = 4.8
Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 3/37 (8%)
Query: 217 KDDLNEAIEYYPNAQEVLK---KKARQLIKENAARER 250
++DL + +P A V+ K + E A R
Sbjct: 117 EEDLKLLLRNHPAAASVVAREMKIVTERRAEKKADSR 153
>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C,
TPR-containing domain, structural genomics; 1.63A
{Plasmodium falciparum} SCOP: a.118.8.1
Length = 198
Score = 27.8 bits (62), Expect = 4.8
Identities = 7/36 (19%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 217 KDDLNEAIEYYPNAQEVLK--KKARQLIKENAARER 250
K++L +A PN ++ + +KE +++
Sbjct: 142 KENLYKAASLNPNNLDIRNSYELCVNKLKEARKKDK 177
>1eje_A FMN-binding protein; structural genomics, PSI, protein struc
initiative; HET: FMN; 2.20A {Methanothermobacter
thermautotrophicusorganism_taxid} SCOP: b.45.1.2
Length = 192
Score = 27.6 bits (62), Expect = 5.2
Identities = 7/34 (20%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 128 DEALLRE---LVLKLRPVLYLPGDYICRKGEVGK 158
++E V ++PVL++ G+ V
Sbjct: 157 RSGAVKEGLLDVESVKPVLHVGGNKFVVGDHVRH 190
>3p9n_A Possible methyltransferase (methylase); RV2966C, adoMet binding,
RNA methylase, RSMD, SAM-fold, RNA methyltransferase;
1.90A {Mycobacterium tuberculosis}
Length = 189
Score = 26.7 bits (60), Expect = 8.5
Identities = 5/36 (13%), Positives = 13/36 (36%)
Query: 236 KKARQLIKENAARERVSQPKLSTMDASSVLLDRKGE 271
+++ +I N +S L ++V+
Sbjct: 77 QRSAAVIARNIEALGLSGATLRRGAVAAVVAAGTTS 112
>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens}
SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A
Length = 336
Score = 27.2 bits (60), Expect = 8.7
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 217 KDDLNEAIEYYPNAQEVLK--KKARQLIKENAARER 250
+ D + ++ YPN + +Q I+ ARE+
Sbjct: 250 RADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREK 285
>1tt9_A Formimidoyltransferase-cyclodeaminase (formiminotransferase-
cyclodeaminase) (FTCD)...; hepatitis autoantigen,
intermediate channeling; 3.42A {Rattus norvegicus} PDB:
2pfd_A
Length = 541
Score = 27.5 bits (60), Expect = 9.5
Identities = 12/65 (18%), Positives = 24/65 (36%), Gaps = 11/65 (16%)
Query: 23 EQVRGDIESGVDEDEEY-----------HDSDSEKERRERFIQERIRHLAHVFTERAQKI 71
+ S VD D ++ E++RR +QE +R V + A+ +
Sbjct: 399 HAASAQLTSLVDADARAFAACLGAIKLPKNTPEERDRRTCALQEGLRQAVAVPLKLAETV 458
Query: 72 KRILD 76
++
Sbjct: 459 SQLWP 463
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
0.314 0.131 0.364
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: 5,236,294
Number of extensions: 312265
Number of successful extensions: 786
Number of sequences better than 10.0: 1
Number of HSP's gapped: 715
Number of HSP's successfully gapped: 83
Length of query: 361
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 266
Effective length of database: 4,049,298
Effective search space: 1077113268
Effective search space used: 1077113268
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: 42 (22.0 bits)
S2: 58 (26.1 bits)