RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1917
(212 letters)
>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 = 142 bits (359), Expect = 2e-43
Identities = 37/193 (19%), Positives = 72/193 (37%), Gaps = 49/193 (25%)
Query: 19 SKKQGVSGESST-NGQTANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVES 77
+++ V E+ + + + + K + ++ A D KNLD Q+ +++++
Sbjct: 1 TRRASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDA 60
Query: 78 MHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRT 137
M + K +VI +G+ G++ +V G F +
Sbjct: 61 MFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCD----------------------- 97
Query: 138 ASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTP 197
G+ + +FGELA++YN R A+I A +P
Sbjct: 98 -------------------------GVGRCVGNYDNRGSFGELALMYNTPRAATITATSP 132
Query: 198 CKVWMLDRRVFQK 210
+W LDR F++
Sbjct: 133 GALWGLDRVTFRR 145
>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 = 135 bits (342), Expect = 6e-41
Identities = 36/191 (18%), Positives = 72/191 (37%), Gaps = 53/191 (27%)
Query: 20 KKQGVSGESSTNGQTANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMH 79
++ +S E + A + KD+++ + AI N +LD + ++ ++M
Sbjct: 4 RRGAISAEVY-TEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAMF 62
Query: 80 QAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTAS 139
+ A VI +G+ G++ +V +GE V + + +G G +FGELA
Sbjct: 63 PVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFGELA---------- 112
Query: 140 IRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCK 199
++Y R A+++A T K
Sbjct: 113 ------------------------------------------LIYGTPRAATVKAKTNVK 130
Query: 200 VWMLDRRVFQK 210
+W +DR +++
Sbjct: 131 LWGIDRDSYRR 141
>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 = 132 bits (335), Expect = 5e-40
Identities = 60/177 (33%), Positives = 88/177 (49%), Gaps = 52/177 (29%)
Query: 34 TANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEG 93
+ + + + Y K +SK LIK AI+DNDF+KNL+ Q++E+V+ M+ EY DS +I EG
Sbjct: 2 SGSHVTLPFYPKSPQSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEG 61
Query: 94 EAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSV 153
+ G+ ++V +G+ +V K+G L MGPGK FGELA
Sbjct: 62 DVGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFGELA------------------------ 97
Query: 154 SAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
ILYNCTRTA+++ L K+W +DR+ FQ
Sbjct: 98 ----------------------------ILYNCTRTATVKTLVNVKLWAIDRQCFQT 126
>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 = 120 bits (301), Expect = 2e-32
Identities = 37/210 (17%), Positives = 74/210 (35%), Gaps = 49/210 (23%)
Query: 2 EPRDPLSSLGKVGQLLNSKKQGVSGESST-NGQTANDIQIQRYDKDFRSKQLIKAAIMDN 60
E + +++ V E+ + + + + K + ++ A D
Sbjct: 91 EEAAEAGAFNAPVINRFTRRASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDI 150
Query: 61 DFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMG 120
KNLD Q+ +++++M + K +VI +G+ G++ +V G F +
Sbjct: 151 LLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCD------ 204
Query: 121 PGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGEL 180
G+ + +FGEL
Sbjct: 205 ------------------------------------------GVGRCVGNYDNRGSFGEL 222
Query: 181 AILYNCTRTASIRALTPCKVWMLDRRVFQK 210
A++YN + A+I A +P +W LDR F++
Sbjct: 223 ALMYNTPKAATITATSPGALWGLDRVTFRR 252
Score = 80.6 bits (198), Expect = 4e-18
Identities = 28/175 (16%), Positives = 59/175 (33%), Gaps = 41/175 (23%)
Query: 36 NDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEA 95
+ + + +++ ++ I FLK+L+ + ++V+ + Y +I +G+
Sbjct: 248 VTFRRIIVKNNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDL 307
Query: 96 GNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSA 155
+ F+ GE ++ K
Sbjct: 308 ADSFFIVESGEVKITMKRKG---------------------------------------- 327
Query: 156 EGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
+A G+ FGELA++ N R AS A+ K +D + F++
Sbjct: 328 -KSEVEENGAVEIARCFRGQYFGELALVTNKPRAASAHAIGTVKCLAMDVQAFER 381
>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 = 116 bits (292), Expect = 6e-32
Identities = 55/127 (43%), Positives = 81/127 (63%), Gaps = 4/127 (3%)
Query: 15 QLLNSKKQGVSGESSTNGQTANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEM 74
+ G++ A +++ K RSK LIK AI+DNDF+KNL+ Q++E+
Sbjct: 3 GSHHHHHHGMASIEGRGSMQA----FRKFTKSERSKDLIKEAILDNDFMKNLELSQIQEI 58
Query: 75 VESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNC 134
V+ M+ EY DS +I EG+ G+ ++V +G+ +V K+G L MGPGK FGELAILYNC
Sbjct: 59 VDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFGELAILYNC 118
Query: 135 TRTASIR 141
TRTA+++
Sbjct: 119 TRTATVK 125
Score = 79.6 bits (196), Expect = 4e-18
Identities = 24/167 (14%), Positives = 51/167 (30%), Gaps = 46/167 (27%)
Query: 44 DKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSA 103
+ ++L + ++ + + + Y+ Y+I +G G+ F+ +
Sbjct: 146 RTGLIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIIS 205
Query: 104 EGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIK 163
+G+ V ++ +
Sbjct: 206 KGKVNVTREDSP----------------------------------------------NE 219
Query: 164 DGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
D L +G G FGE A+ RTA++ A ++DR F+
Sbjct: 220 DPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTCLVIDRDSFKH 266
>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 = 108 bits (271), Expect = 3e-29
Identities = 22/92 (23%), Positives = 46/92 (50%)
Query: 50 KQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQV 109
Q ++ +I +N LD+ + ++ + + + +I +G+ G+ +V +G
Sbjct: 2 LQRLEKSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVDF 61
Query: 110 IKDGKILAVMGPGKAFGELAILYNCTRTASIR 141
+ + GPG +FGELA++YN R A++
Sbjct: 62 YVNDNKVNSSGPGSSFGELALMYNSPRAATVV 93
Score = 85.3 bits (211), Expect = 2e-20
Identities = 27/175 (15%), Positives = 55/175 (31%), Gaps = 51/175 (29%)
Query: 36 NDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEA 95
+ F+ + + + LK+L T ++ +++ Y+ +I EG+
Sbjct: 106 LTFRKILLGSSFKKRLMYDDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQ 165
Query: 96 GNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSA 155
G + ++ G V K G+
Sbjct: 166 GENFYLIEYGAVDVSKKGQ----------------------------------------- 184
Query: 156 EGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
++ + FGE+A+L + R A++ A KV L + FQ+
Sbjct: 185 ----------GVINKLKDHDYFGEVALLNDLPRQATVTATKRTKVATLGKSGFQR 229
>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 = 107 bits (267), Expect = 2e-28
Identities = 30/123 (24%), Positives = 61/123 (49%), Gaps = 1/123 (0%)
Query: 19 SKKQGVSGESSTNGQTANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESM 78
++ +S E + A + KD+++ + AI N +LD + ++ ++M
Sbjct: 4 RRRGAISAEVY-TEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAM 62
Query: 79 HQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTA 138
+ A VI +G+ G++ +V +GE V + + +G G +FGELA++Y R A
Sbjct: 63 FPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFGELALIYGTPRAA 122
Query: 139 SIR 141
+++
Sbjct: 123 TVK 125
Score = 78.1 bits (192), Expect = 1e-17
Identities = 29/177 (16%), Positives = 64/177 (36%), Gaps = 46/177 (25%)
Query: 34 TANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEG 93
+ + R +++ + + L++LD + + +++ +++ ++ +G
Sbjct: 136 DRDSYRRILMGSTLRKRKMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQG 195
Query: 94 EAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSV 153
E G++ F+ EG V++
Sbjct: 196 EPGDEFFIILEGSAAVLQRRS--------------------------------------- 216
Query: 154 SAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
E E + + +GP FGE+A+L N + A++ A P K LDR F++
Sbjct: 217 --ENE-----EFVEVGRLGPSDYFGEIALLMNRPKAATVVARGPLKCVKLDRPRFER 266
>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 = 106 bits (265), Expect = 2e-27
Identities = 32/123 (26%), Positives = 63/123 (51%), Gaps = 1/123 (0%)
Query: 19 SKKQGVSGESSTNGQTANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESM 78
++ GVS E T + ++ KD+++ + AI N +LD + ++ ++M
Sbjct: 95 RRRGGVSAEVYTEEDAVSYVRKV-IPKDYKTMTALAKAISKNVLFAHLDDNERSDIFDAM 153
Query: 79 HQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTA 138
+ A VI +G G++ +V +GE V +G+ + + G +FGELA++Y R A
Sbjct: 154 FPVTHIAGETVIQQGNEGDNFYVVDQGEVDVYVNGEWVTNISEGGSFGELALIYGTPRAA 213
Query: 139 SIR 141
+++
Sbjct: 214 TVK 216
Score = 78.6 bits (193), Expect = 2e-17
Identities = 26/154 (16%), Positives = 56/154 (36%), Gaps = 46/154 (29%)
Query: 57 IMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKIL 116
+ L++L+ + + +++ +++ ++ +GE G+D ++ EG V++
Sbjct: 250 LSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVLQRRS-- 307
Query: 117 AVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKA 176
++ + +GP
Sbjct: 308 --------------------------------------------PNEEYVEVGRLGPSDY 323
Query: 177 FGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
FGE+A+L N R A++ A P K LDR F++
Sbjct: 324 FGEIALLLNRPRAATVVARGPLKCVKLDRPRFER 357
>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 = 81.7 bits (202), Expect = 3e-20
Identities = 14/102 (13%), Positives = 34/102 (33%), Gaps = 4/102 (3%)
Query: 41 QRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEY-KADSYVITEGEAGNDL 99
D D + + + N+ +E+ M +A + ++ +G+ +
Sbjct: 5 SSGDDDI---EQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSW 61
Query: 100 FVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIR 141
+V G ++ + + G +FG L +R
Sbjct: 62 YVILNGTVEISHPDGKVENLFMGNSFGITPTLDKQYMHGIVR 103
>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 = 80.0 bits (196), Expect = 8e-18
Identities = 25/170 (14%), Positives = 52/170 (30%), Gaps = 53/170 (31%)
Query: 43 YDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEY-KADSYVITEGEAGNDLFV 101
+ ++I ++ L +L T +E+ + + K + + +GE G ++
Sbjct: 325 GQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYI 384
Query: 102 SAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQV 161
+G V+ GK
Sbjct: 385 ILKGSVNVVIYGK----------------------------------------------- 397
Query: 162 IKDGKILAVMGPGKAFGELAILYNCTRTASIRALTP-CKVWMLDRRVFQK 210
++ + G FG+LA++ + R ASI C +D+ F +
Sbjct: 398 ----GVVCTLHEGDDFGKLALVNDAPRAASIVLREDNCHFLRVDKEDFNR 443
Score = 76.5 bits (187), Expect = 1e-16
Identities = 21/187 (11%), Positives = 54/187 (28%), Gaps = 46/187 (24%)
Query: 23 GVSGESSTNGQTANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAE 82
+ S ++ + + + ++ +I + + ++++ +
Sbjct: 10 AHAAHSQSSAEWIACLDKRPLERSSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYEN 69
Query: 83 YKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRG 142
+ + +G+ G + + G V
Sbjct: 70 LEKGITLFRQGDIGTNWYAVLAGSLDVKVS------------------------------ 99
Query: 143 FLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWM 202
E +D + +G G AFGE +IL N R A+I ++
Sbjct: 100 ---------------ETSSHQDAVTICTLGIGTAFGE-SILDNTPRHATIVTRESSELLR 143
Query: 203 LDRRVFQ 209
+++ F+
Sbjct: 144 IEQEDFK 150
>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 = 76.7 bits (189), Expect = 9e-18
Identities = 28/171 (16%), Positives = 50/171 (29%), Gaps = 47/171 (27%)
Query: 40 IQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDL 99
+ + + I + + +V+ + M D ++TEG+ G+ L
Sbjct: 24 LVHLGGADKYFEEILEIVNKIKLFGDFSNEEVRYLCSYMQCYAAPRDCQLLTEGDPGDYL 83
Query: 100 FVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEF 159
+ GE VIKD
Sbjct: 84 LLILTGEVNVIKD-----------------------------------------IPNKGI 102
Query: 160 QVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
Q +A +G G GE++++ R+AS A P +L R +
Sbjct: 103 Q------TIAKVGAGAIIGEMSMIDGMPRSASCVASLPTDFAVLSRDALYQ 147
>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 = 73.5 bits (181), Expect = 4e-17
Identities = 26/102 (25%), Positives = 46/102 (45%), Gaps = 7/102 (6%)
Query: 40 IQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDL 99
++R D R+ QL+ A + L + E+V ++ A + + GE G+ +
Sbjct: 1 VRRGD-FVRNWQLVAAV----PLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRM 55
Query: 100 FVSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIR 141
F EG V +GPG FGE+A++ R+A++
Sbjct: 56 FFVVEGSVSVATPNP--VELGPGAFFGEMALISGEPRSATVS 95
>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 = 67.7 bits (166), Expect = 7e-15
Identities = 18/149 (12%), Positives = 43/149 (28%), Gaps = 44/149 (29%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
F +L Q+K++ + + S + E ++L ++ +G +
Sbjct: 13 FFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLM--------LLLEGGV------ 58
Query: 122 GKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGELA 181
+ + + PG FG +
Sbjct: 59 ------------------------------ELFYSNGGAGSAANSTVCSVVPGAIFGVSS 88
Query: 182 ILYNCTRTASIRALTPCKVWMLDRRVFQK 210
++ T+S RA P +V ++ ++
Sbjct: 89 LIKPYHYTSSARATKPVRVVDINGARLRE 117
>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 = 68.5 bits (168), Expect = 1e-14
Identities = 22/80 (27%), Positives = 34/80 (42%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
N D V M+ + ++ Y+I EG G ++ G V+ G +
Sbjct: 79 LFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKLSD 138
Query: 122 GKAFGELAILYNCTRTASIR 141
G FGE+ +L RTAS+R
Sbjct: 139 GSYFGEICLLTRGRRTASVR 158
Score = 58.9 bits (143), Expect = 4e-11
Identities = 18/56 (32%), Positives = 27/56 (48%)
Query: 155 AEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
G V+ G + G FGE+ +L RTAS+RA T C+++ L F +
Sbjct: 120 QHGVVSVLTKGNKEMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNE 175
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 67.3 bits (165), Expect = 1e-14
Identities = 33/158 (20%), Positives = 53/158 (33%), Gaps = 47/158 (29%)
Query: 53 IKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKD 112
+ + N LD Q E+ SM + + EG+ G+ L+V EG+ ++ +
Sbjct: 3 MDDVLRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHR- 61
Query: 113 GKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMG 172
S +G +LAV+G
Sbjct: 62 ----------------------------------------TSPDGREN------MLAVVG 75
Query: 173 PGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
P + GEL++ RTA+ ALT K+ L Q
Sbjct: 76 PSELIGELSLFDPGPRTATGTALTEVKLLALGHGDLQP 113
>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 = 65.8 bits (161), Expect = 6e-14
Identities = 14/82 (17%), Positives = 32/82 (39%), Gaps = 2/82 (2%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
+ ++ + + GE+ + L G +VI+D +++A++G
Sbjct: 34 AFRLASDGCLRALAMEFQTVHCAPGDLIYHAGESVDSLCFVVSGSLEVIQDDEVVAILGK 93
Query: 122 GKAFGELAILY--NCTRTASIR 141
G FG++ A++R
Sbjct: 94 GDVFGDVFWKEATLAQSCANVR 115
>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 = 66.5 bits (163), Expect = 7e-14
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 1/81 (1%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVI-KDGKILAVMG 120
F D+ V +V + ++ YVI EG G+ +F +G +I DG I +
Sbjct: 78 FFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIVDIIMSDGVIATSLS 137
Query: 121 PGKAFGELAILYNCTRTASIR 141
G FGE+ +L R AS++
Sbjct: 138 DGSYFGEICLLTRERRVASVK 158
>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 = 64.8 bits (158), Expect = 9e-14
Identities = 16/155 (10%), Positives = 43/155 (27%), Gaps = 49/155 (31%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKD------GKI 115
+N+D + + E + + SY++ EG+ N++ G + +
Sbjct: 13 LFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGFYN 72
Query: 116 LAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGK 175
+++ G G+ + + +
Sbjct: 73 RSLLKEGDFCGDELLTWALDPKSGSNL--------------------------------- 99
Query: 176 AFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
+ T +++ALT + + L +
Sbjct: 100 ----------PSSTRTVKALTEVEAFALIADELKF 124
>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 = 64.7 bits (158), Expect = 3e-13
Identities = 13/82 (15%), Positives = 36/82 (43%), Gaps = 2/82 (2%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
++ ++ + + + ++I +G+A ++ G +V+KD +LA++G
Sbjct: 82 LFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGSMEVLKDNTVLAILGK 141
Query: 122 GKAFGELAILYNCT--RTASIR 141
G G ++ A+++
Sbjct: 142 GDLIGSDSLTKEQVIKTNANVK 163
Score = 56.6 bits (137), Expect = 3e-10
Identities = 14/58 (24%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 155 AEGEFQVIKDGKILAVMGPGKAFGELAILYNCT--RTASIRALTPCKVWMLDRRVFQK 210
G +V+KD +LA++G G G ++ A+++ALT C + + + ++
Sbjct: 123 CSGSMEVLKDNTVLAILGKGDLIGSDSLTKEQVIKTNANVKALTYCDLQYISLKGLRE 180
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 60.8 bits (148), Expect = 4e-12
Identities = 19/162 (11%), Positives = 53/162 (32%), Gaps = 48/162 (29%)
Query: 50 KQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQV 109
+++ + + + + L +Q++E++ S +YV +GE + + G ++
Sbjct: 7 QRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKI 66
Query: 110 IKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILA 169
+ ++ EG+ + IL
Sbjct: 67 YR-----------------------------------------LTPEGQEK------ILE 79
Query: 170 VMGPGKAFGELAILYN-CTRTASIRALTPCKVWMLDRRVFQK 210
V F E + + A+ +A+ P +++ + + +
Sbjct: 80 VTNERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSNKAYLR 121
>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 = 61.9 bits (151), Expect = 5e-12
Identities = 26/158 (16%), Positives = 51/158 (32%), Gaps = 47/158 (29%)
Query: 53 IKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKD 112
+ + + ++ + + + + ++ V EGE G+ L+ +I
Sbjct: 4 MDEILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLY--------IIIS 55
Query: 113 GKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMG 172
GK+ K + +G +L +MG
Sbjct: 56 GKV-------KI--------------------------GRRAPDGREN------LLTIMG 76
Query: 173 PGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
P FGEL+I RT+S +T + +DR +
Sbjct: 77 PSDMFGELSIFDPGPRTSSATTITEVRAVSMDRDALRS 114
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 62.4 bits (151), Expect = 7e-12
Identities = 17/83 (20%), Positives = 34/83 (40%), Gaps = 4/83 (4%)
Query: 63 LKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDG----KILAV 118
+ + + S+ A ++ +GE + + G +V G I+A
Sbjct: 21 FQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSAEVSHVGDDGVAIIAR 80
Query: 119 MGPGKAFGELAILYNCTRTASIR 141
PG GE+A+L + R+A++
Sbjct: 81 ALPGMIVGEIALLRDSPRSATVT 103
>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 = 60.7 bits (148), Expect = 1e-11
Identities = 28/149 (18%), Positives = 52/149 (34%), Gaps = 47/149 (31%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
+N+ ++E ++ + + ++ D V+ + G L + G +V +
Sbjct: 13 LFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSR---------- 62
Query: 122 GKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGELA 181
VS G + +L + GE A
Sbjct: 63 -------------------------------VSLGGRER------VLGDIYAPGVVGETA 85
Query: 182 ILYNCTRTASIRALTPCKVWMLDRRVFQK 210
+L + R+AS+RALTP + ML R F+
Sbjct: 86 VLAHQERSASVRALTPVRTLMLHREHFEL 114
>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 = 58.8 bits (143), Expect = 5e-11
Identities = 24/151 (15%), Positives = 47/151 (31%), Gaps = 51/151 (33%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
L +V + + Y + +G+ G L++ + GK+
Sbjct: 6 LFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYL--------VASGKV------ 51
Query: 122 GKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGK--ILAVMGPGKAFGE 179
+ G+ LA++GPG+ FGE
Sbjct: 52 ------------------------------RLFRTHL-----GGQERTLALLGPGELFGE 76
Query: 180 LAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
+++L R+AS A+ ++ L R +
Sbjct: 77 MSLLDEGERSASAVAVEDTELLALFREDYLA 107
>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 = 58.4 bits (142), Expect = 1e-10
Identities = 26/162 (16%), Positives = 51/162 (31%), Gaps = 47/162 (29%)
Query: 49 SKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQ 108
+ + KA ++ +++L V ++ Y + + E + V
Sbjct: 5 AHEAQKAIARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHV------- 57
Query: 109 VIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKIL 168
+ DG + + F ++ G ++
Sbjct: 58 -VIDGWV--------------------KL-------------FRMTPTGSEA------VV 77
Query: 169 AVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
+V G++FGE L N S A+TPC+V + VF
Sbjct: 78 SVFTRGESFGEAVALRNTPYPVSAEAVTPCEVMHIPSPVFVS 119
>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 = 58.2 bits (141), Expect = 1e-10
Identities = 28/152 (18%), Positives = 50/152 (32%), Gaps = 52/152 (34%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
K ++ + H +Y + S +I +GE L+ I G +
Sbjct: 53 LGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLY--------YIVKGSV------ 98
Query: 122 GKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGK--ILAVMGPGKAFGE 179
+V + E +GK IL+ + G GE
Sbjct: 99 ------------------------------AVLIKDE-----EGKEMILSYLNQGDFIGE 123
Query: 180 LAILYNC-TRTASIRALTPCKVWMLDRRVFQK 210
L + R+A +RA T C+V + + F++
Sbjct: 124 LGLFEEGQERSAWVRAKTACEVAEISYKKFRQ 155
>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 = 55.3 bits (134), Expect = 8e-10
Identities = 28/150 (18%), Positives = 50/150 (33%), Gaps = 52/150 (34%)
Query: 64 KNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGK 123
K ++ + H +Y + S +I +GE L+ I G +
Sbjct: 5 KPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLY--------YIVKGSV-------- 48
Query: 124 AFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGK--ILAVMGPGKAFGELA 181
+V + E +GK IL+ + G GEL
Sbjct: 49 ----------------------------AVLIKDE-----EGKEMILSYLNQGDFIGELG 75
Query: 182 ILYN-CTRTASIRALTPCKVWMLDRRVFQK 210
+ R+A +RA T C+V + + F++
Sbjct: 76 LFEEGQERSAWVRAKTACEVAEISYKKFRQ 105
>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 = 54.6 bits (132), Expect = 2e-09
Identities = 19/85 (22%), Positives = 40/85 (47%), Gaps = 5/85 (5%)
Query: 60 NDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIK---DGK-- 114
D L+ + + + + + K S V +EG+ N+LF EG+ ++++ G+
Sbjct: 15 RDVWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFH 74
Query: 115 ILAVMGPGKAFGELAILYNCTRTAS 139
I ++ PG+ FG T +++
Sbjct: 75 ISRIVKPGQFFGMRPYFAEETCSST 99
>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 = 54.6 bits (132), Expect = 2e-09
Identities = 20/150 (13%), Positives = 39/150 (26%), Gaps = 48/150 (32%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
LD ++ + H+ Y + V G+ L+ G +I
Sbjct: 18 PSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSIIA---------- 67
Query: 122 GKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGELA 181
+ +L G G+ GE+
Sbjct: 68 -------------------------------EEDDDREL------VLGYFGSGEFVGEMG 90
Query: 182 ILY-NCTRTASIRALTPCKVWMLDRRVFQK 210
+ + TR +R T C++ + Q+
Sbjct: 91 LFIESDTREVILRTRTQCELAEISYERLQQ 120
>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 = 53.4 bits (129), Expect = 4e-09
Identities = 23/149 (15%), Positives = 44/149 (29%), Gaps = 51/149 (34%)
Query: 66 LDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGKAF 125
+ + +++ H+ Y A S +I G+ LF +G ++
Sbjct: 1 MKLKHLDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILI-------------- 46
Query: 126 GELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGELAIL-- 183
+G I+ + G FGEL +
Sbjct: 47 ---------------------------EDDDGREM------IIGYLNSGDFFGELGLFEK 73
Query: 184 --YNCTRTASIRALTPCKVWMLDRRVFQK 210
R+A +RA C+V + F++
Sbjct: 74 EGSEQERSAWVRAKVECEVAEISYAKFRE 102
>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 = 53.0 bits (128), Expect = 6e-09
Identities = 9/73 (12%), Positives = 26/73 (35%), Gaps = 5/73 (6%)
Query: 64 KNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIK---DGK--ILAV 118
+ + +K+++ ++ V + + D+ + EG + +GK +
Sbjct: 8 HHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDE 67
Query: 119 MGPGKAFGELAIL 131
+ P + I
Sbjct: 68 IKPVQIIASGFIF 80
>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 = 52.3 bits (126), Expect = 1e-08
Identities = 17/159 (10%), Positives = 37/159 (23%), Gaps = 56/159 (35%)
Query: 58 MDNDFLKN------LDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIK 111
+ DF +++ + ++ S VI GE + +
Sbjct: 6 LGKDFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMI--------FLV 57
Query: 112 DGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVM 171
+GKI + + +G + +L
Sbjct: 58 EGKI--------------------KL-------------DIIFEDGSEK------LLYYA 78
Query: 172 GPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
G G+L A+ P + + +
Sbjct: 79 GGNSLIGKLYPT---GNNIYATAMEPTRTCWFSEKSLRT 114
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 51.9 bits (125), Expect = 1e-08
Identities = 19/162 (11%), Positives = 54/162 (33%), Gaps = 48/162 (29%)
Query: 50 KQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQV 109
+++ + + + + L +Q++E++ S +YV +GE + +
Sbjct: 4 QRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFY--------Y 55
Query: 110 IKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILA 169
+ G + + + ++ EG+ + IL
Sbjct: 56 LISGCV--------------------KI-------------YRLTPEGQEK------ILE 76
Query: 170 VMGPGKAFGELAILYN-CTRTASIRALTPCKVWMLDRRVFQK 210
V F E + + A+ +A+ P +++ + + +
Sbjct: 77 VTNERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSNKAYLR 118
>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 = 51.1 bits (123), Expect = 3e-08
Identities = 18/151 (11%), Positives = 36/151 (23%), Gaps = 57/151 (37%)
Query: 61 DFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKI-LAVM 119
+ L + + + S V T N +F V+ DG++ + ++
Sbjct: 6 NIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVF--------VVVDGRLRVYLV 57
Query: 120 GPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGE 179
G + L + G F
Sbjct: 58 GEEREI-----------------------------------------SLFYLTSGDMFCM 76
Query: 180 LAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
+ + A +V D R F++
Sbjct: 77 HS-------GCLVEATERTEVRFADIRTFEQ 100
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 51.0 bits (122), Expect = 5e-08
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 60 NDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVM 119
+ L + E+V ++ A + + GE G+ +F EG V + +
Sbjct: 233 VPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNPV--EL 290
Query: 120 GPGKAFGELAILYNCTRTASIR 141
GPG FGE+A++ R+A++
Sbjct: 291 GPGAFFGEMALISGEPRSATVS 312
Score = 49.9 bits (119), Expect = 1e-07
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 155 AEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
EG V + +GPG FGE+A++ R+A++ A T + L FQ
Sbjct: 276 VEGSVSVATPNPV--ELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQM 329
>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 = 49.9 bits (120), Expect = 8e-08
Identities = 18/151 (11%), Positives = 42/151 (27%), Gaps = 49/151 (32%)
Query: 62 FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
+L+T Q K + +++ K + + L ++K G++
Sbjct: 10 LWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLL--------LVKSGQL------ 55
Query: 122 GKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPG--KAFGE 179
RT + +S EG L +
Sbjct: 56 --------------RT-------------YILSDEGREI------TLYRLFDMDMCLLSA 82
Query: 180 LAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
I+ + +I A +W++ +++
Sbjct: 83 SCIMRSIQFEVTIEAEKDTDLWIIPAEIYKG 113
>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 = 49.2 bits (118), Expect = 1e-07
Identities = 15/150 (10%), Positives = 35/150 (23%), Gaps = 50/150 (33%)
Query: 64 KNLDTLQVKEMVE--SMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGP 121
+ L +++ +H ++KA +I G L + G+I V
Sbjct: 27 QGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLC--------FLLKGEISIVT-- 76
Query: 122 GKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGELA 181
+ E + ++ + +
Sbjct: 77 -------------------------------NAKENIYT------VIEQIEAPYLIEPQS 99
Query: 182 ILYNCTR-TASIRALTPCKVWMLDRRVFQK 210
+ T +S A T + +
Sbjct: 100 LFGMNTNYASSYVAHTEVHTVCISKAFVLS 129
>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 = 48.8 bits (117), Expect = 2e-07
Identities = 13/73 (17%), Positives = 30/73 (41%), Gaps = 4/73 (5%)
Query: 61 DFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIK--DGK--IL 116
+ L+ L++ + +++ + Y + + T N +F+ G +V + K L
Sbjct: 10 NLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAYEDKEFTL 69
Query: 117 AVMGPGKAFGELA 129
A++ G F
Sbjct: 70 AILEAGDIFCTHT 82
>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 = 48.9 bits (117), Expect = 2e-07
Identities = 17/152 (11%), Positives = 41/152 (26%), Gaps = 54/152 (35%)
Query: 61 DFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMG 120
+ + + T +VE+ ++ + + G+ ++ + G +
Sbjct: 31 NVFRQMATGAFPPVVET-----FERNKTIFFPGDPAERVYF--------LLKGAV----- 72
Query: 121 PGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVIKDGKILAVMGPGKAFGEL 180
+ V GE +A++ FG L
Sbjct: 73 ---------------KL-------------SRVYEAGEEI------TVALLRENSVFGVL 98
Query: 181 AILYN--CTRTASIRALTPCKVWMLDRRVFQK 210
++L R A TP ++ ++
Sbjct: 99 SLLTGNKSDRFYHAVAFTPVELLSAPIEQVEQ 130
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 45.7 bits (109), Expect = 2e-06
Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 3/47 (6%)
Query: 164 DGK--ILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVF 208
+G L ++ PG FGE A+ R A T ++ L
Sbjct: 44 EGNALTLRLVRPGGFFGEEALF-GQERIYFAEAATDVRLEPLPENPD 89
Score = 41.5 bits (98), Expect = 5e-05
Identities = 16/73 (21%), Positives = 28/73 (38%), Gaps = 8/73 (10%)
Query: 74 MVESMHQAEYKADSYVITEGEAG--NDLFVSAEGEFQVIK---DGK--ILAVMGPGKAFG 126
M + +KA ++ G G + + EG ++ +G L ++ PG FG
Sbjct: 1 MTQVRETVSFKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFG 60
Query: 127 ELAILYNCTRTAS 139
E A+ R
Sbjct: 61 EEALF-GQERIYF 72
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 45.6 bits (109), Expect = 2e-06
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 6/60 (10%)
Query: 155 AEGEFQVIK---DGK--ILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQ 209
EG +V++ DG+ L + PG FGE A L + A+T V L+ R
Sbjct: 24 EEGLVRVVELLPDGRLITLRHVLPGDYFGEEA-LEGKAYRYTAEAMTEAVVQGLEPRAMD 82
Score = 44.9 bits (107), Expect = 3e-06
Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 8/64 (12%)
Query: 83 YKADSYVITEGEAGNDLFVSAEGEFQVIK---DGK--ILAVMGPGKAFGELAIL---YNC 134
+ + GE L+ EG +V++ DG+ L + PG FGE A+ Y
Sbjct: 4 FARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEALEGKAYRY 63
Query: 135 TRTA 138
T A
Sbjct: 64 TAEA 67
>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 = 45.4 bits (108), Expect = 3e-06
Identities = 7/82 (8%), Positives = 22/82 (26%), Gaps = 7/82 (8%)
Query: 65 NLDTLQVKEMVES--MHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIK---DGK--ILA 117
N + K+ +E+ + ++ + + + +G ++ +G L
Sbjct: 3 NAQAEEFKKYLETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQ 62
Query: 118 VMGPGKAFGELAILYNCTRTAS 139
I +
Sbjct: 63 YYKGAFVIMSGFIDTETSVGYY 84
>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 = 38.9 bits (90), Expect = 9e-04
Identities = 29/172 (16%), Positives = 51/172 (29%), Gaps = 33/172 (19%)
Query: 49 SKQLIKAAIMDNDFLKNL----DTLQVKEMVESMHQAEYKAD--SYVITEGEAGN----- 97
+ A+ + F K L + + E AE YV + E
Sbjct: 24 TASFFIASQLQEQFNKILPEPTEGFAADD--EPTTPAELVGKFLGYVSSLVEPSKVGQFD 81
Query: 98 DLFVSAEGEF--QVIKDGKI--LAVMGPGKAFGELAILYNCTRTASIRGFLTVLHF-NFS 152
+ EF ++ I LA + L I+ ++T
Sbjct: 82 QVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV-----KTKELIKNYITARIMAKRP 136
Query: 153 VSAEGE---FQVIKDG--KILAVMG----PGKAFGELAILYNCTRTASIRAL 195
+ F+ + +G +++A+ G F EL LY T + L
Sbjct: 137 FDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ-TYHVLVGDL 187
Score = 36.2 bits (83), Expect = 0.007
Identities = 27/153 (17%), Positives = 50/153 (32%), Gaps = 48/153 (31%)
Query: 2 EPRDPLSSLGKVGQLLNSKKQGVSGESSTNGQTANDIQIQRYDKDFRSKQLIKAAIMD-- 59
EP P +GK ++S E S GQ Q++ + +
Sbjct: 53 EPTTPAELVGKFLGYVSSLV-----EPSKVGQF---------------DQVLNLCLTEFE 92
Query: 60 NDFLKNLD---------------TLQVKEMVESMHQAEYKADSYVITEGEAGNDLFVSAE 104
N +L+ D ++ KE++++ A A + + LF +
Sbjct: 93 NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSA--LFRAVG 150
Query: 105 GEFQVIKDGKILAVMG----PGKAFGELAILYN 133
+ +++A+ G F EL LY
Sbjct: 151 EG-----NAQLVAIFGGQGNTDDYFEELRDLYQ 178
>3a21_A Putative secreted alpha-galactosidase; beta-alpha-barrel, greek KEY
motif, beta-jellyroll, beta-TRE hydrolase; HET: GOL 1PG
EPE; 1.51A {Streptomyces avermitilis} PDB: 3a22_A*
3a23_A*
Length = 614
Score = 38.2 bits (88), Expect = 0.001
Identities = 14/91 (15%), Positives = 34/91 (37%), Gaps = 10/91 (10%)
Query: 101 VSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQ 160
++ E + K L G G ++++C A+ + ++++++G
Sbjct: 528 YTSRKELVLY-GNKCLDAYNLGTTNGTKVVIWDCNGQANQK---------WNINSDGTIT 577
Query: 161 VIKDGKILAVMGPGKAFGELAILYNCTRTAS 191
+ G L A G +L++C +
Sbjct: 578 NVNAGLCLDAYNAATANGTSLVLWSCGTGDN 608
>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 = 38.3 bits (88), Expect = 0.002
Identities = 21/170 (12%), Positives = 48/170 (28%), Gaps = 49/170 (28%)
Query: 41 QRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVESMHQAEYKADSYVITEGEAGNDLF 100
+R +D +I + + ++++ + + + +G+ G + +
Sbjct: 31 ERSSEDV---DIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWY 87
Query: 101 VSAEGEFQVIKDGKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQ 160
G V
Sbjct: 88 AVLAGSLDVKVSE---------------------------------------------TS 102
Query: 161 VIKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQK 210
+D + +G G AFGE +IL N R A+I ++ +++ F+
Sbjct: 103 SHQDAVTICTLGIGTAFGE-SILDNTPRHATIVTRESSELLRIEQEDFKA 151
>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 = 36.4 bits (83), Expect = 0.005
Identities = 23/185 (12%), Positives = 50/185 (27%), Gaps = 68/185 (36%)
Query: 27 ESSTNGQTANDIQIQRYDKDFRS-----------KQLIKAAIMDN--------------- 60
E+ + DI + ++ F K ++ +D+
Sbjct: 10 ETGEHQYQYKDI-LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLF 68
Query: 61 DFLKNLDTLQVKEMVESMHQAEYK----------------ADSYVITEGEAGND------ 98
L + V++ VE + + YK Y+ ND
Sbjct: 69 WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK 128
Query: 99 LFVSAEGEFQVIK-------DGKILAV--M-GPGKAFGELAILYNCTRTASIRGFLTVLH 148
VS + ++ K + + + G GK + +A+ +
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW--VAL-------DVCLSYKVQCK 179
Query: 149 FNFSV 153
+F +
Sbjct: 180 MDFKI 184
>3pg0_A Threefoil; symmetric design, beta-trefoil, engineered module, sugar
BIN NOVO protein; HET: BTB GOL; 1.62A {Artificial gene}
Length = 165
Score = 29.6 bits (67), Expect = 0.46
Identities = 15/81 (18%), Positives = 29/81 (35%), Gaps = 9/81 (11%)
Query: 113 GKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVI--KDGKILAV 170
GK L V + G I Y+ + + + +G ++++ GK L V
Sbjct: 37 GKALDVENASTSDGANVIQYSYSGGDN-------QQWRLVDLGDGYYKLVARHSGKALDV 89
Query: 171 MGPGKAFGELAILYNCTRTAS 191
+ G I Y+ + +
Sbjct: 90 ENASTSDGANVIQYSYSGGDN 110
Score = 27.7 bits (62), Expect = 2.0
Identities = 15/80 (18%), Positives = 29/80 (36%), Gaps = 9/80 (11%)
Query: 113 GKILAVMGPGKAFGELAILYNCTRTASIRGFLTVLHFNFSVSAEGEFQVI--KDGKILAV 170
GK L V + G I Y+ + + + + +G ++++ GK L V
Sbjct: 84 GKALDVENASTSDGANVIQYSYSGGDNQQ-------WRLVDLGDGYYKLVARHSGKALDV 136
Query: 171 MGPGKAFGELAILYNCTRTA 190
+ G I Y+ +
Sbjct: 137 ENASTSDGANVIQYSYSGGD 156
>3h8u_A Uncharacterized conserved protein with double-STR beta-helix
domain; YP_001338853.1; HET: 2PE; 1.80A {Klebsiella
pneumoniae subsp}
Length = 125
Score = 29.0 bits (65), Expect = 0.51
Identities = 18/122 (14%), Positives = 43/122 (35%), Gaps = 34/122 (27%)
Query: 36 NDIQIQRYD----KDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVE-----SMHQAEYKAD 86
+ + + + + + I++ +++ + D++ V + H + D
Sbjct: 8 AETESRIFSVDEYVRPSNGEPIRSVVLETN-----DSVVVVWHAHPGQEIASHVHPHGQD 62
Query: 87 SYVITEGEA------GNDLFVSAEGEFQVIKDG-------------KILAVMGPGKAFGE 127
++ + GEA G + G+ + K G ++V+ PG A
Sbjct: 63 TWTVISGEAEYHQGNGIVTHLK-AGDIAIAKPGQVHGAMNSGPEPFIFVSVVAPGNAGFA 121
Query: 128 LA 129
LA
Sbjct: 122 LA 123
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 27.4 bits (61), Expect = 2.5
Identities = 4/55 (7%), Positives = 14/55 (25%), Gaps = 3/55 (5%)
Query: 159 FQVIKDGK--ILAVMGPGKAFGELAILYNCTRT-ASIRALTPCKVWMLDRRVFQK 210
F + + G + I+++ C++ + +
Sbjct: 62 FFIDEKGIEQTTQFAIENWWLSDYMAFQKQQPADFYIQSVENCELLSITYTEQEN 116
>3qfg_A Uncharacterized protein; structural genomics, center for structural
genomics of infec diseases, csgid, unknown function;
3.08A {Staphylococcus aureus subsp}
Length = 242
Score = 27.2 bits (59), Expect = 4.4
Identities = 9/50 (18%), Positives = 15/50 (30%), Gaps = 2/50 (4%)
Query: 162 IKDGKILAVMGPGKAFGELAILYNCTRTASIRALTPCKVWMLDRRVFQKS 211
IK+ I+ K +A T + L P + + Q
Sbjct: 73 IKEPFIINEKDEKKK--YIAFKMEITAKKDDKDLNPSSISHDYINITQDD 120
>2ozl_B PDHE1-B, pyruvate dehydrogenase E1 component subunit beta;
pyruvate_dehydrogenase_complex, human,
multienzyme_complex_component; HET: TPP; 1.90A {Homo
sapiens} SCOP: c.36.1.7 c.48.1.2 PDB: 1ni4_B* 3exe_B*
3exf_B* 3exg_B 3exh_B* 3exi_B
Length = 341
Score = 26.7 bits (60), Expect = 5.5
Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 12/58 (20%)
Query: 50 KQLIKAAIMDND---FLKNLDTLQVKEMVESMHQAEYKADSYVITEGEA-----GNDL 99
K LIK+AI DN+ L+N V E ++ ++I G+A G +
Sbjct: 166 KGLIKSAIRDNNPVVVLENELMYGVPFEFP----PEAQSKDFLIPIGKAKIERQGTHI 219
>2pk3_A GDP-6-deoxy-D-LYXO-4-hexulose reductase; SDR, short-chain
dehydrogenase/reductase, rossmann fold, oxidoreductase;
HET: A2R GDD; 1.82A {Aneurinibacillus thermoaerophilus}
Length = 321
Score = 26.8 bits (60), Expect = 6.0
Identities = 9/51 (17%), Positives = 21/51 (41%), Gaps = 8/51 (15%)
Query: 53 IKAAIMDNDF-LKNLDTLQ----VKEMVESMH---QAEYKADSYVITEGEA 95
I+ + + NL+ ++ V+++V++ Q D Y + G
Sbjct: 203 IEMEKQEPIIKVGNLEAVRDFTDVRDIVQAYWLLSQYGKTGDVYNVCSGIG 253
>2x5p_A FBA2, fibronectin binding protein; protein binding; 1.60A
{Streptococcus pyogenes}
Length = 121
Score = 25.3 bits (55), Expect = 9.2
Identities = 20/112 (17%), Positives = 40/112 (35%), Gaps = 8/112 (7%)
Query: 19 SKKQGVSGESSTNGQTANDIQIQRYDKDFRSKQLIKAAIMDNDFLKNLDTLQVKEMVE-- 76
S +QG SG+ + +A I+ + D D + + A M+ L++ + +
Sbjct: 11 SSEQGQSGDMTIEEDSATHIKFSKRDID---GKELAGATME---LRDSSGKTISTWISDG 64
Query: 77 SMHQAEYKADSYVITEGEAGNDLFVSAEGEFQVIKDGKILAVMGPGKAFGEL 128
+ Y E A + V+ F V + G++ K +
Sbjct: 65 QVKDFYLMPGKYTFVETAAPDGYEVATAITFTVNEQGQVTVNGKATKGDAHI 116
>3ef2_A Agglutinin, lectin; beta-trefoil, calcium-binding,
carbohydrate-binding, sugar-binding, sugar binding
protein; HET: FUC GAL GLA; 1.80A {Marasmius oreades}
PDB: 2iho_A*
Length = 293
Score = 26.2 bits (57), Expect = 9.5
Identities = 6/83 (7%), Positives = 18/83 (21%), Gaps = 8/83 (9%)
Query: 113 GKILAVMGPGKAFGELAILYNCTRTASIRG--FLTVLHFNFSVSAEGEFQVI--KDGKIL 168
+ + + G + + T + + F + G +
Sbjct: 16 PSAIDLKDGSSSDGTPIVGWQFTPDTINWHQLW----LAEPIPNVADTFTLCNLFSGTYM 71
Query: 169 AVMGPGKAFGELAILYNCTRTAS 191
+ G + T +
Sbjct: 72 DLYNGSSEAGTAVNGWQGTAFTT 94
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
0.318 0.134 0.378
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: 3,071,916
Number of extensions: 174718
Number of successful extensions: 602
Number of sequences better than 10.0: 1
Number of HSP's gapped: 539
Number of HSP's successfully gapped: 113
Length of query: 212
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 123
Effective length of database: 4,216,824
Effective search space: 518669352
Effective search space used: 518669352
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 (21.7 bits)
S2: 55 (25.0 bits)