RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15967
(280 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 = 108 bits (272), Expect = 2e-29
Identities = 37/162 (22%), Positives = 49/162 (30%), Gaps = 55/162 (33%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRI 74
+PGD I G+ + V G L V+ DDE V+A L G VFG+
Sbjct: 54 HCAPGDLIYHAGESVDSLCFVVSGSLEVIQDDE--VVAILGKGDVFGD------------ 99
Query: 75 TSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSD 134
V T + ANVR+L Y D
Sbjct: 100 ----------------------------------VFWK----EATLAQSCANVRALTYCD 121
Query: 135 LFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAF 176
L + + L + L Y HS L+ L F
Sbjct: 122 LHVIKRDALQKVLEFYTAFSHSFSR---NLILTYNLRKRIVF 160
>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 = 108 bits (272), Expect = 4e-29
Identities = 32/153 (20%), Positives = 58/153 (37%), Gaps = 53/153 (34%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRI 74
VF P DY+ ++G G M+ +++G ++++ D + +LS GS FGE
Sbjct: 98 VFQPADYVIQEGTFGDRMFFIQQGIVDIIMSDGV-IATSLSDGSYFGE------------ 144
Query: 75 TSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSD 134
+ +L T RR A+V+ Y
Sbjct: 145 ----------------------------------ICLL------TRERRVASVKCETYCT 164
Query: 135 LFCLAKRDLWETLADYPEARHSLMERGCQLLRK 167
LF L+ + + L ++P R ++ E + L +
Sbjct: 165 LFSLSVQHFNQVLDEFPAMRKTMEEIAVRRLTR 197
>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 = 105 bits (264), Expect = 7e-28
Identities = 40/155 (25%), Positives = 58/155 (37%), Gaps = 54/155 (34%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRI 74
VF PGDYI R+G +GK+MY ++ G ++V+ LS GS FGE
Sbjct: 99 VFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN--KEMKLSDGSYFGE------------ 144
Query: 75 TSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSD 134
+ +L T RRTA+VR+ Y
Sbjct: 145 ----------------------------------ICLL------TRGRRTASVRADTYCR 164
Query: 135 LFCLAKRDLWETLADYPEARHSLMERGCQLLRKDG 169
L+ L+ + E L +YP R + L + G
Sbjct: 165 LYSLSVDNFNEVLEEYPMMRRAFETVAIDRLDRIG 199
>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 = 100 bits (252), Expect = 5e-26
Identities = 31/154 (20%), Positives = 52/154 (33%), Gaps = 52/154 (33%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRI 74
+PG+++ R+GD + +Y V G + V+ D+ VLA L G + G
Sbjct: 102 FCAPGEFLIRQGDALQAIYFVCSGSMEVLKDNT--VLAILGKGDLIGS------------ 147
Query: 75 TSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSD 134
S+ + + ANV++L Y D
Sbjct: 148 ----------------------------------DSLTKEQVIK----TNANVKALTYCD 169
Query: 135 LFCLAKRDLWETLADYPEARHSLMERGCQLLRKD 168
L ++ + L E L YPE + L +
Sbjct: 170 LQYISLKGLREVLRLYPEYAQKFVSEIQHDLTYN 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 = 92.9 bits (231), Expect = 7e-24
Identities = 23/149 (15%), Positives = 42/149 (28%), Gaps = 53/149 (35%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADD----EETVLATLSAGSVFGEVRHVLGVD 70
+F+ Y+ R+GD EM + RG+L V D + L G G+
Sbjct: 33 LFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGFYNRSLLKEGDFCGD-------- 84
Query: 71 LGRITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNR---RTANV 127
+ ++G+ T V
Sbjct: 85 --------------------------------------ELLTWALDPKSGSNLPSSTRTV 106
Query: 128 RSLGYSDLFCLAKRDLWETLADYPEARHS 156
++L + F L +L + + + S
Sbjct: 107 KALTEVEAFALIADELKFVASQFRRSGPS 135
>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 = 75.0 bits (185), Expect = 4e-17
Identities = 24/153 (15%), Positives = 40/153 (26%), Gaps = 56/153 (36%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRI 74
G ICR G+ G M+ V G ++V + L G+ FG
Sbjct: 38 TVPAGAVICRIGEPGDRMFFVVEGSVSVATPNP----VELGPGAFFG------------- 80
Query: 75 TSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSD 134
E+ +++ +G R+A V +
Sbjct: 81 --------EM-------------------------ALI------SGEPRSATVSAATTVS 101
Query: 135 LFCLAKRDLWETLADYPEARHSLMERGCQLLRK 167
L L D + PE + +
Sbjct: 102 LLSLHSADFQMLCSSSPEIAEIFRKTALERRGA 134
>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 = 64.4 bits (157), Expect = 1e-12
Identities = 27/182 (14%), Positives = 61/182 (33%), Gaps = 68/182 (37%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEVRHVLGVDLG 72
+ +GD G + ++ G++NV+ + +A + AG++ GE
Sbjct: 67 APRDCQLLTEGDPGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAGAIIGE---------- 116
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
+S++ G R+A+ +
Sbjct: 117 ------------------------------------MSMI------DGMPRSASCVASLP 134
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFR----NSQVEHEALKD 188
+D L++ L++ LA+ P+ + ++ R QLL R ++ + L +
Sbjct: 135 TDFAVLSRDALYQLLANMPKLGNKVLIRLLQLL---------TARFRESYDRILPKTLGE 185
Query: 189 TV 190
+
Sbjct: 186 LI 187
>3swy_A Cyclic nucleotide-gated cation channel alpha-3; coiled-coil,
assembly domain, transport protein; 1.90A {Homo sapiens}
Length = 46
Score = 59.5 bits (144), Expect = 2e-12
Identities = 25/43 (58%), Positives = 34/43 (79%)
Query: 185 ALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLEQ 227
AL++ V +L ++L+ LQTRFARL+AEY + Q KMKQRL+ LE
Sbjct: 2 ALEEKVEQLGSSLDTLQTRFARLLAEYNATQMKMKQRLSQLES 44
>3swf_A CGMP-gated cation channel alpha-1; coiled-coil, assembly domain,
transport protein; 2.14A {Bos taurus}
Length = 74
Score = 60.1 bits (145), Expect = 3e-12
Identities = 24/68 (35%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 184 EALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLE-QGASVNQATSSKRNSQ 242
L++ V R++++++ LQTRFAR++AEY S Q K+KQRL +E + S
Sbjct: 3 MGLEEKVTRMESSVDLLQTRFARILAEYESMQQKLKQRLTKVEKFLKPLIDTEFSAIEGS 62
Query: 243 AEPTHPED 250
+ P D
Sbjct: 63 GTESGPTD 70
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 61.1 bits (149), Expect = 7e-12
Identities = 32/167 (19%), Positives = 52/167 (31%), Gaps = 56/167 (33%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEVRHVLGVDLG 72
+ GD + +GD G +Y+V GK+ + D E +LA + + GE
Sbjct: 33 LARGDTLFHEGDPGDRLYVVTEGKVKLHRTSPDGRENMLAVVGPSELIGE---------- 82
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
+S+ RTA +L
Sbjct: 83 ------------------------------------LSLF------DPGPRTATGTALTE 100
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRK-DGLLDEEAFRN 178
L L DL L PE +L+ + LRK + + + F +
Sbjct: 101 VKLLALGHGDLQPWLNVRPEVATALLRAVARRLRKTNDAMSDLVFSD 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 = 60.1 bits (146), Expect = 2e-11
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 2/49 (4%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV--ADDEETVLATLSAGSVFGE 62
G+++ +GD G Y++ RG ++ D + FGE
Sbjct: 66 VKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGE 114
Score = 30.8 bits (70), Expect = 0.28
Identities = 5/41 (12%), Positives = 12/41 (29%)
Query: 119 TGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLME 159
R A + + L+ L + + + + E
Sbjct: 119 YNTPRAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYE 159
>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 = 58.9 bits (143), Expect = 4e-11
Identities = 24/140 (17%), Positives = 44/140 (31%), Gaps = 54/140 (38%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRIT 75
+ I ++GDVG +Y+++ GK+ V + L T+ G VFGE
Sbjct: 51 YGKDSCIIKEGDVGSLVYVMEDGKVEVTKEGV--KLCTMGPGKVFGE------------- 95
Query: 76 SFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDL 135
L ++ RTA V++L L
Sbjct: 96 --------------LAIL-------------------------YNCTRTATVKTLVNVKL 116
Query: 136 FCLAKRDLWETLADYPEARH 155
+ + ++ + +H
Sbjct: 117 WAIDRQCFQTIMMRTGLIKH 136
>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 = 57.3 bits (139), Expect = 1e-10
Identities = 14/157 (8%), Positives = 37/157 (23%), Gaps = 58/157 (36%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV------ADDEETVLATLSAGSVFGEVRHVLGV 69
F G I ++ + ++ G + + + + ++ G++FG
Sbjct: 34 FPTGSVIFKENSKADNLMLLLEGGVELFYSNGGAGSAANSTVCSVVPGAIFGV------- 86
Query: 70 DLGRITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRS 129
S+++ T++ R+
Sbjct: 87 ---------------------------------------SSLIK------PYHYTSSARA 101
Query: 130 LGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLR 166
+ + L E + LM +
Sbjct: 102 TKPVRVVDINGARLREMSENNQALGQVLMNNVAAAVL 138
>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 = 57.0 bits (138), Expect = 2e-10
Identities = 22/142 (15%), Positives = 43/142 (30%), Gaps = 54/142 (38%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRIT 75
F G+ + ++GD G Y++ +G+++V ++E ++ G FGE
Sbjct: 66 FIAGETVIQQGDEGDNFYVIDQGEMDVYVNNE--WATSVGEGGSFGE------------- 110
Query: 76 SFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDL 135
L LI G R A V++ L
Sbjct: 111 --------------LALI-------------------------YGTPRAATVKAKTNVKL 131
Query: 136 FCLAKRDLWETLADYPEARHSL 157
+ + + L + +
Sbjct: 132 WGIDRDSYRRILMGSTLRKRKM 153
>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 = 56.8 bits (137), Expect = 1e-09
Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63
++ PG+ I R+GD G+ Y+++ G ++V + + L FGEV
Sbjct: 152 IYQPGETIIREGDQGENFYLIEYGAVDVSKKGQGVI-NKLKDHDYFGEV 199
Score = 53.3 bits (128), Expect = 1e-08
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63
G I ++GD G Y+V++G ++ +D + + + GS FGE+
Sbjct: 34 SVPKGATIIKQGDQGDYFYVVEKGTVDFYVNDNK--VNSSGPGSSFGEL 80
Score = 29.4 bits (66), Expect = 1.2
Identities = 6/42 (14%), Positives = 13/42 (30%), Gaps = 4/42 (9%)
Query: 119 TGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMER 160
R A V + + + L K L + +++
Sbjct: 203 NDLPRQATVTATKRTKVATLGKSGFQRLLGPAVD----VLKL 240
>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 = 53.9 bits (130), Expect = 2e-09
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 2/50 (4%)
Query: 14 FVFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63
V G I G Y++ G + + D + + L G+ FG
Sbjct: 43 VVEQAGAIILEDGQELDSWYVILNGTVEISHPDGK--VENLFMGNSFGIT 90
>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 = 54.5 bits (132), Expect = 3e-09
Identities = 29/194 (14%), Positives = 58/194 (29%), Gaps = 60/194 (30%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEVRHVLGVDLG 72
++ I GD + ++ + +G + ++ D E ++ L++G FGE
Sbjct: 18 YTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNSGDFFGE---------- 67
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
+ + E + R+A VR+
Sbjct: 68 ------------------------------------LGLFE--KEGSEQERSAWVRAKVE 89
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRR 192
++ ++ E E ++L + LRK +V A D R
Sbjct: 90 CEVAEISYAKFRELSQQDSEILYTLGSQMADRLRKT---------TRKVGDLAFLDVTGR 140
Query: 193 LDTTLEHLQTRFAR 206
+ TL L +
Sbjct: 141 VARTLLDLCQQPDA 154
>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 = 55.7 bits (133), Expect = 4e-09
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGE 62
G + +G+ G YI+ +G +NVV + V+ TL G FG+
Sbjct: 365 HAKGGTVLFNQGEEGTSWYIILKGSVNVV-IYGKGVVCTLHEGDDFGK 411
Score = 52.2 bits (124), Expect = 7e-08
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADD-----EETVLATLSAGSVFGE 62
G + R+GD+G Y V G L+V + + + TL G+ FGE
Sbjct: 70 LEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE 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 = 54.5 bits (131), Expect = 7e-09
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 4/52 (7%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADD----EETVLATLSAGSVFGEV 63
+ G+YI R+G G +I+ +GK+NV +D + L TL G FGE
Sbjct: 185 YENGEYIIRQGARGDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDWFGEK 236
Score = 50.3 bits (120), Expect = 2e-07
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGE 62
+ I ++GDVG +Y+++ GK+ V E L T+ G VFGE
Sbjct: 67 YGKDSCIIKEGDVGSLVYVMEDGKVEVT--KEGVKLCTMGPGKVFGE 111
>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 = 53.4 bits (129), Expect = 1e-08
Identities = 35/214 (16%), Positives = 65/214 (30%), Gaps = 72/214 (33%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEVRHVLGVDLG 72
F G + +G+ G +YI+ GK+ + D E +L + +FGE
Sbjct: 34 FPRGHTVFAEGEPGDRLYIIISGKVKIGRRAPDGRENLLTIMGPSDMFGE---------- 83
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
+S+ + RT++ ++
Sbjct: 84 ------------------------------------LSIFD------PGPRTSSATTITE 101
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRR 192
+ + L +AD PE L+ + LR+ N+ + D R
Sbjct: 102 VRAVSMDRDALRSWIADRPEISEQLLRVLARRLRR---------TNNNLADLIFTDVPGR 152
Query: 193 LDTTLEHLQTRFARLMAE------YLSQQ--AKM 218
+ L L RF L+Q+ A++
Sbjct: 153 VAKQLLQLAQRFGTQEGGALRVTHDLTQEEIAQL 186
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 53.9 bits (129), Expect = 1e-08
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV--ADDEETVLATLSAGSVFGEV 63
+ G + R+G+ ++ G V DD ++A G + GE+
Sbjct: 41 AAAGQVLLRQGEPAVSFLLISSGSAEVSHVGDDGVAIIARALPGMIVGEI 90
>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 = 53.1 bits (128), Expect = 2e-08
Identities = 26/213 (12%), Positives = 68/213 (31%), Gaps = 70/213 (32%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEVRHVLGVDLG 72
+ + +G+ + +Y + +G + V+ + +E +L+ L+ G GE
Sbjct: 74 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE---------- 123
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
+ + E G R+A VR+
Sbjct: 124 ------------------------------------LGLFE-----EGQERSAWVRAKTA 142
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRR 192
++ ++ + + + P+ L + + L+ + +V + A R
Sbjct: 143 CEVAEISYKKFRQLIQVNPDILMRLSAQMARRLQV---------TSEKVGNLAFLLVTGR 193
Query: 193 LDTTLEHLQTRFARLMAEY-----LSQQ--AKM 218
+ TL +L + + +++Q ++
Sbjct: 194 IAQTLLNLAKQPDAMTHPDGMQIKITRQEIGQI 226
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 51.5 bits (124), Expect = 2e-08
Identities = 10/51 (19%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
G Y+ R+G+ Y + G + + + +E +L + + F E
Sbjct: 40 LDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEA 90
>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 = 53.2 bits (127), Expect = 3e-08
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVV----ADDEETVLATLSAGSVFGEV 63
F G+ I +G+ G + YI+ G +V+ ++E + L FGE+
Sbjct: 275 QFEDGEKIVVQGEPGDDFYIITEGTASVLQRRSPNEEYVEVGRLGPSDYFGEI 327
Score = 46.6 bits (110), Expect = 4e-06
Identities = 13/48 (27%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63
G+ + ++G+ G Y+V +G+++V + E + +S G FGE+
Sbjct: 158 HIAGETVIQQGNEGDNFYVVDQGEVDVYVNGE--WVTNISEGGSFGEL 203
>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 = 51.8 bits (125), Expect = 3e-08
Identities = 33/208 (15%), Positives = 70/208 (33%), Gaps = 67/208 (32%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEVRHVLGVDLG 72
+ G I +GD+G+ +Y+V GK+ + +E LA L G +FGE
Sbjct: 27 YPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGGQERTLALLGPGELFGE---------- 76
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
+S+L+ R+A+ ++
Sbjct: 77 ------------------------------------MSLLD------EGERSASAVAVED 94
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRR 192
++L L + D + P H+L + LR+ + +++ + ++ R
Sbjct: 95 TELLALFREDYLALIRRLPLVAHNLAALLARRLRE---------ADLELDLLSFEEARNR 145
Query: 193 LDTTLEHLQTRFARLMAEYLSQQ--AKM 218
+ L L + + + + A +
Sbjct: 146 VAYALLKLLRQGLGPLFQ-IRHHELAAL 172
>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 = 51.9 bits (125), Expect = 3e-08
Identities = 28/213 (13%), Positives = 69/213 (32%), Gaps = 70/213 (32%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEVRHVLGVDLG 72
+ + +G+ + +Y + +G + V+ + +E +L+ L+ G GE
Sbjct: 24 YPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE---------- 73
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
L L + Q R+A VR+
Sbjct: 74 -----------------LGLFEEGQE------------------------RSAWVRAKTA 92
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRR 192
++ ++ + + + P+ L + + L+ + +V + A D R
Sbjct: 93 CEVAEISYKKFRQLIQVNPDILMRLSAQMARRLQV---------TSEKVGNLAFLDVTGR 143
Query: 193 LDTTLEHLQTRFARLMAEY-----LSQQ--AKM 218
+ TL +L + + +++Q ++
Sbjct: 144 IAQTLLNLAKQPDAMTHPDGMQIKITRQEIGQI 176
>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 = 51.2 bits (122), Expect = 1e-07
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV----ADDEETVLATLSAGSVFGEV 63
F G I +G+ G E +I+ G V+ ++E + L FGE+
Sbjct: 185 FEDGQKIVVQGEPGDEFFIILEGSAAVLQRRSENEEFVEVGRLGPSDYFGEI 236
Score = 44.6 bits (105), Expect = 1e-05
Identities = 13/48 (27%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63
F G+ + ++GD G Y++ +G+++V ++E ++ G FGE+
Sbjct: 67 FIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEW--ATSVGEGGSFGEL 112
>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 = 50.4 bits (121), Expect = 1e-07
Identities = 33/214 (15%), Positives = 57/214 (26%), Gaps = 70/214 (32%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEVRHVLGVDLG 72
F I GD + +Y + +G + + EE +A L SVFG
Sbjct: 48 FERNKTIFFPGDPAERVYFLLKGAVKLSRVYEAGEEITVALLRENSVFGV---------- 97
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
L + +R + +
Sbjct: 98 ---------------------------------------LSLLTGNKSDR-FYHAVAFTP 117
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRR 192
+L + + L + PE ++ + + +E A +D R
Sbjct: 118 VELLSAPIEQVEQALKENPELSMLMLRGLSSRILQT---------EMMIETLAHRDMGSR 168
Query: 193 LDTTLEHLQTRFARLMAE------YLSQQ--AKM 218
L + L L F A+ LS Q A+
Sbjct: 169 LVSFLLILCRDFGVPCADGITIDLKLSHQAIAEA 202
>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 = 51.0 bits (121), Expect = 2e-07
Identities = 44/297 (14%), Positives = 93/297 (31%), Gaps = 99/297 (33%)
Query: 7 YSYTALNFVFSPG---DYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63
Y Y + VF ++ C+ V D +++L+ E+
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKD-----------------VQDMPKSILSK-------EEI 51
Query: 64 RHVLGV--DLGR----ITSFCSKGYEI----------PNTKWLNLIVKAQPMKLRKTVLN 107
H++ + + SK E+ N K+L +K + R+ +
Sbjct: 52 DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ---RQPSMM 108
Query: 108 KVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRK 167
+E R Y+D AK ++ L Y + R +L+E LR
Sbjct: 109 TRMYIE-------------QRDRLYNDNQVFAKYNVSR-LQPYLKLRQALLE-----LRP 149
Query: 168 ------DGL-------LDEEAFRNSQVEHEALKDTV--------RRLDTTLEHLQTRFAR 206
DG+ + + + +V+ + + +T LE LQ +
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQ-CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208
Query: 207 LMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNSQAEPTHPE------DVRNSKCL 257
+ + + ++ + L ++ + R + +V+N+K
Sbjct: 209 IDPNW-TSRSDHSSNIKL-----RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW 259
>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 = 49.1 bits (118), Expect = 2e-07
Identities = 22/212 (10%), Positives = 46/212 (21%), Gaps = 78/212 (36%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDE---ETVLATLSAGSVFGEVRHVLGVDLG 72
F G+ + + D +++ I+ G L E + + +
Sbjct: 27 FRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQIIASG--------- 77
Query: 73 RITSFCSKGYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY 132
S R NV +
Sbjct: 78 ---FIFSSE---------------------------------------PRFPVNVVAGEN 95
Query: 133 SDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRR 192
S + + K + L E ++ + R + ++ K +
Sbjct: 96 SKILSIPKEVFLDLLMKDRELLLFFLKDVSEHFR---------VVSEKLFFLTTKTLREK 146
Query: 193 LDTTLEHLQTRFARLMAEYLSQQAKMKQRLAL 224
L +L + K+ L L
Sbjct: 147 L---------------MNFLVRHMNEKRELTL 163
>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 = 50.1 bits (119), Expect = 3e-07
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV--ADDEETVLATLSAGSVFGEV 63
G+++ +GD G Y++ RG ++ D + FGE+
Sbjct: 173 VKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGEL 222
Score = 49.7 bits (118), Expect = 4e-07
Identities = 13/58 (22%), Positives = 27/58 (46%), Gaps = 9/58 (15%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVV---------ADDEETVLATLSAGSVFGEV 63
V++ G+ I +GD+ +IV+ G++ + ++ +A G FGE+
Sbjct: 294 VYNDGEQIIAQGDLADSFFIVESGEVKITMKRKGKSEVEENGAVEIARCFRGQYFGEL 351
>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 = 48.4 bits (116), Expect = 5e-07
Identities = 8/51 (15%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDE---ETVLATLSAGSVFGEV 63
G+ I + G+ ++ + +G++++V + + TV+ + A +
Sbjct: 48 HKAGETIIKSGNPCTQLCFLLKGEISIVTNAKENIYTVIEQIEAPYLIEPQ 98
>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 = 47.3 bits (113), Expect = 1e-06
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNV--VADDEETVLATLSAGSVFGEVR 64
+S + +++VK G++ V +D+E LA L AG +F
Sbjct: 32 YSKKAILYTPNTERNLVFLVKSGRVRVYLAYEDKEFTLAILEAGDIFCTHT 82
Score = 33.4 bits (77), Expect = 0.052
Identities = 10/102 (9%), Positives = 32/102 (31%), Gaps = 9/102 (8%)
Query: 120 GNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNS 179
A ++++ + + R+ + ++P ++++ LL+ +
Sbjct: 79 CTHTRAFIQAMEDTTILYTDIRNFQNIVVEFPAFSLNMVKVLGDLLKNS---------LT 129
Query: 180 QVEHEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQR 221
+ KD RL L + + + + +
Sbjct: 130 IINGLVFKDARLRLAEFLVQAAMDTGLKVPQGIKLELGLNTE 171
>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 = 47.3 bits (113), Expect = 1e-06
Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNV--VADDEETVLATLSAGSVFGEVR 64
+ G +C +++V G+L V V ++ E L L++G +F
Sbjct: 28 HAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEEREISLFYLTSGDMFCMHS 78
Score = 28.4 bits (64), Expect = 2.1
Identities = 11/104 (10%), Positives = 24/104 (23%), Gaps = 17/104 (16%)
Query: 123 RTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVE 182
V + +++ R + L P L+ + L +E
Sbjct: 78 SGCLVEATERTEVRFADIRTFEQKLQTCPSMAWGLIAILGRALTS---------CMRTIE 128
Query: 183 HEALKDTVRRLDTTLEHLQTRFARLMAE------YLSQQ--AKM 218
D +R+ R + + A +
Sbjct: 129 DLMFHDIKQRIAGFFIDHANTTGRQTQGGVIVSVDFTVEEIANL 172
>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 = 45.8 bits (109), Expect = 4e-06
Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
F+ G + G+ M + GK+ + D E +L S+ G++
Sbjct: 37 FAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKL 87
>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 = 45.3 bits (108), Expect = 6e-06
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
F P + + + G+ +++V G + V E VL + A V GE
Sbjct: 34 FQPDELVVEQDAEGEALHLVTTGVVRVSRVSLGGRERVLGDIYAPGVVGET 84
>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 = 45.0 bits (107), Expect = 7e-06
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
+ + R GD +Y V G ++++ DD E VL +G GE+
Sbjct: 39 YPTRTDVFRPGDPAGTLYYVISGSVSIIAEEDDDRELVLGYFGSGEFVGEM 89
>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 = 45.0 bits (107), Expect = 8e-06
Identities = 6/51 (11%), Positives = 12/51 (23%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
F + I + D + + G + + L V
Sbjct: 23 FHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMSG 73
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 44.6 bits (106), Expect = 1e-05
Identities = 10/51 (19%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
G Y+ R+G+ Y + G + + + +E +L + + F E
Sbjct: 37 LDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEA 87
>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 = 44.2 bits (105), Expect = 2e-05
Identities = 9/51 (17%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
+ G+ + + + + +++V G + + E V++ + G FGE
Sbjct: 39 YDRGETLFLQEEKAQAIHVVIDGWVKLFRMTPTGSEAVVSVFTRGESFGEA 89
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 42.6 bits (101), Expect = 3e-05
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
F+ + I +G+ + +Y ++ G + VV D L + G FGE
Sbjct: 4 FARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEE 54
>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 = 42.6 bits (101), Expect = 5e-05
Identities = 7/51 (13%), Positives = 18/51 (35%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
+ +GD+ ++ + GK+ ++ + + G FG
Sbjct: 38 CKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFHISRIVKPGQFFGMR 88
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 41.0 bits (96), Expect = 2e-04
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63
G ICR G+ G M+ V G ++V + L G+ FGE+
Sbjct: 256 VPAGAVICRIGEPGDRMFFVVEGSVSVATPNP----VELGPGAFFGEM 299
Score = 27.9 bits (62), Expect = 4.1
Identities = 9/40 (22%), Positives = 13/40 (32%)
Query: 120 GNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLME 159
G R+A V + L L D + PE +
Sbjct: 304 GEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEIFRK 343
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 39.5 bits (93), Expect = 4e-04
Identities = 14/53 (26%), Positives = 18/53 (33%), Gaps = 5/53 (9%)
Query: 16 FSPGDYICRKGDVGK--EMYIVKRGKLNVV---ADDEETVLATLSAGSVFGEV 63
F GD I G G Y V G + + + L + G FGE
Sbjct: 10 FKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFGEE 62
>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 = 37.7 bits (87), Expect = 0.004
Identities = 52/326 (15%), Positives = 92/326 (28%), Gaps = 90/326 (27%)
Query: 30 KEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTKW 89
+++Y + + L+ L ++ E G++ I + P+ +
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN---ILEWLENPSNTPDKDY 230
Query: 90 L-------NLIVKAQ--------------PMKLRK-----TVLNK--VSVLEIAGNRTGN 121
L LI Q P +LR T ++ V+ + IA +
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE 290
Query: 122 RRTANVRS-LGYSDLFCLAKR--------DLWET-LADYPEARH---SLM--ERGC---Q 163
+VR + LF + R L + L D E S M Q
Sbjct: 291 SFFVSVRKAITV--LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQ 348
Query: 164 LLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTT-----LEHLQTRFARLMAEYLSQQAK- 217
+ + QV +L + + L + L L + A Q++
Sbjct: 349 VQDYVNKTNSHLPAGKQV-EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI 407
Query: 218 -MKQR--------L--------ALLEQGASVNQATSSKRNSQAEPTH---P-------ED 250
+R L LL + + K N P D
Sbjct: 408 PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Query: 251 VRNSKCLLSPGFLSDGLVEDTTTSPV 276
+R G +S+ +V+ PV
Sbjct: 468 LRVLS-----GSISERIVDCIIRLPV 488
Score = 32.3 bits (73), Expect = 0.20
Identities = 22/134 (16%), Positives = 41/134 (30%), Gaps = 39/134 (29%)
Query: 133 SDLFCLAKRDLWET-LADYPEARHSLMERGCQLLRKDGL-LDEE------------AFRN 178
+ F +A + L E PE +G D+E + +
Sbjct: 24 TASFFIASQ-LQEQFNKILPEP-------------TEGFAADDEPTTPAELVGKFLGYVS 69
Query: 179 SQVEHEALKDTVRRLDTTLEHLQTRF----------ARLMAEYLSQQAKMKQRL-ALLEQ 227
S VE + + L+ L + + A+L+ E + K K+ + +
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 228 GASVNQATSSKRNS 241
+ K NS
Sbjct: 130 RIMAKRPFDKKSNS 143
Score = 30.0 bits (67), Expect = 1.0
Identities = 22/117 (18%), Positives = 39/117 (33%), Gaps = 37/117 (31%)
Query: 81 GYEIPNTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY---SDLFC 137
G+ I + IV P+ L T+ G G R N ++ + D
Sbjct: 1658 GFSILD------IVINNPVNL--TIHF--------GGEKGKRIRENYSAMIFETIVDGKL 1701
Query: 138 LAKR---DLWETLADY----PEARHS----------LMERGC-QLLRKDGLLDEEAF 176
++ ++ E Y + S LME+ + L+ GL+ +A
Sbjct: 1702 KTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADAT 1758
>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 = 36.5 bits (85), Expect = 0.005
Identities = 9/53 (16%), Positives = 14/53 (26%), Gaps = 5/53 (9%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKLNVV---ADDEETVLATLSAG--SVFGEV 63
G I + +VK G+L + E L L +
Sbjct: 31 VKKGTIIHNGNMDCTGLLLVKSGQLRTYILSDEGREITLYRLFDMDMCLLSAS 83
>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 = 34.8 bits (79), Expect = 0.035
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 15 VFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEET-----VLATLSAGSVFGE 62
G + R+GD+G Y V G L+V + + + TL G+ FGE
Sbjct: 69 NLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE 121
Score = 27.5 bits (60), Expect = 6.7
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 19 GDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGE 62
G + +G+ G YI+ +G +NVV + V+ TL G FG+
Sbjct: 369 GTVLFNQGEEGTSWYIILKGSVNVV-IYGKGVVCTLHEGDDFGK 411
>1u4q_A Spectrin alpha chain, brain; alpha spectrin, three repeats of
spectrin, alpha-helical linker region, 3-helix
coiled-coil, structural protein; 2.50A {Gallus gallus}
SCOP: a.7.1.1 a.7.1.1 a.7.1.1
Length = 322
Score = 34.1 bits (78), Expect = 0.037
Identities = 13/87 (14%), Positives = 35/87 (40%)
Query: 141 RDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHL 200
L + D + + E+ + +D D +N + +H+ L+ + + ++ +
Sbjct: 109 HRLHQFFRDMDDEESWIKEKKLLVSSEDYGRDLTGVQNLRKKHKRLEAELAAHEPAIQGV 168
Query: 201 QTRFARLMAEYLSQQAKMKQRLALLEQ 227
+L + + +++QRLA
Sbjct: 169 LDTGKKLSDDNTIGKEEIQQRLAQFVD 195
>1u5p_A Spectrin alpha chain, brain; alpha spectrin, two repeats of
spectrin, alpha-helical linker region, 3-helix coiled
coil, structural protein; 2.00A {Gallus gallus} SCOP:
a.7.1.1 a.7.1.1
Length = 216
Score = 31.8 bits (72), Expect = 0.19
Identities = 13/87 (14%), Positives = 35/87 (40%)
Query: 141 RDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHL 200
L + D + + E+ + +D D +N + +H+ L+ + + ++ +
Sbjct: 109 HRLHQFFRDMDDEESWIKEKKLLVSSEDYGRDLTGVQNLRKKHKRLEAELAAHEPAIQGV 168
Query: 201 QTRFARLMAEYLSQQAKMKQRLALLEQ 227
+L + + +++QRLA
Sbjct: 169 LDTGKKLSDDNTIGKEEIQQRLAQFVD 195
Score = 26.4 bits (58), Expect = 8.4
Identities = 11/65 (16%), Positives = 26/65 (40%)
Query: 163 QLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRL 222
L +D D + N +H+ L+ + + L+ L ++ LM +++K +
Sbjct: 25 LLASEDYGKDLASVNNLLKKHQLLEADISAHEDRLKDLNSQADSLMTSSAFDTSQVKDKR 84
Query: 223 ALLEQ 227
+
Sbjct: 85 ETING 89
>3edv_A Spectrin beta chain, brain 1; spectrin repeat, coiled coil, actin
capping, actin-binding, alternative splicing,
calmodulin-binding, cytoplasm; 1.95A {Homo sapiens}
Length = 323
Score = 31.5 bits (71), Expect = 0.29
Identities = 16/97 (16%), Positives = 35/97 (36%), Gaps = 4/97 (4%)
Query: 141 RDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHL 200
+ W L + + R ++ +L + E R + ++ R + T+E L
Sbjct: 92 NEAWADLLELIDTRTQILAASYELHKFYHDAKEIFGRIQDKHKKLPEELGRDQN-TVETL 150
Query: 201 QTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSS 237
Q + + +++Q L E A + A +
Sbjct: 151 QRMHTTFEHDIQALGTQVRQ---LQEDAARLQAAYAG 184
>1quu_A Human skeletal muscle alpha-actinin 2; triple-helix coiled coil,
contractIle protein; 2.50A {Homo sapiens} SCOP: a.7.1.1
a.7.1.1
Length = 250
Score = 30.4 bits (68), Expect = 0.47
Identities = 18/114 (15%), Positives = 41/114 (35%), Gaps = 8/114 (7%)
Query: 141 RDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTT---- 196
D W+ L + R +ER +LL L E + + + ++ + L
Sbjct: 100 CDQWDRLGTLTQKRREALERMEKLLETIDQLHLEFAKRAAPFNNWMEGAMEDLQDMFIVH 159
Query: 197 ----LEHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNSQAEPT 246
++ L T + A + + +A+ + V Q+ + + +S +
Sbjct: 160 SIEEIQSLITAHEQFKATLPEADGERQSIMAIQNEVEKVIQSYNIRISSSNPYS 213
>3kbt_A Beta-I spectrin, spectrin beta chain, erythrocyte; complex,
spectrin, spectrin repeat, three helix bundle, ANKY
binding, disease mutation, structural protein, ZU5
sandwich; 2.75A {Homo sapiens} PDB: 3kbu_A
Length = 326
Score = 30.7 bits (69), Expect = 0.55
Identities = 12/81 (14%), Positives = 30/81 (37%)
Query: 147 LADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFAR 206
D EA + E+ ++ + DEE H + V ++ L +R
Sbjct: 10 YLDADEAEAWIGEQELYVISDEIPKDEEGAIVMLKRHLRQQRAVEDYGRNIKQLASRAQG 69
Query: 207 LMAEYLSQQAKMKQRLALLEQ 227
L++ + ++ + +++
Sbjct: 70 LLSAGHPEGEQIIRLQGQVDK 90
>1hci_A Alpha-actinin 2; triple-helix coiled coil, contractIle protein,
muscle, Z- LINE, actin-binding protein; 2.8A {Homo
sapiens} SCOP: a.7.1.1 a.7.1.1 a.7.1.1 a.7.1.1
Length = 476
Score = 30.2 bits (67), Expect = 0.78
Identities = 18/115 (15%), Positives = 41/115 (35%), Gaps = 8/115 (6%)
Query: 141 RDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDT----- 195
D W+ L + R +ER +LL L E + + + ++ + L
Sbjct: 217 CDQWDRLGTLTQKRREALERMEKLLETIDQLHLEFAKRAAPFNNWMEGAMEDLQDMFIVH 276
Query: 196 ---TLEHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNSQAEPTH 247
++ L T + A + + +A+ + V Q+ + + +S +
Sbjct: 277 SIEEIQSLITAHEQFKATLPEADGERQSIMAIQNEVEKVIQSYNIRISSSNPYST 331
>3dn7_A Cyclic nucleotide binding regulatory protein; structural
genomics, APC88869, cyclic nucleotide binding REG
protein, PSI-2; 1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 29.7 bits (67), Expect = 0.81
Identities = 6/51 (11%), Positives = 15/51 (29%), Gaps = 3/51 (5%)
Query: 16 FSPGDYICRKGDVGKEMYIVKRGKL---NVVADDEETVLATLSAGSVFGEV 63
+ + + G++ + Y V +G L + E +
Sbjct: 35 VRKKETLLKTGEICRINYFVVKGCLRLFFIDEKGIEQTTQFAIENWWLSDY 85
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 1.3
Identities = 9/70 (12%), Positives = 22/70 (31%), Gaps = 11/70 (15%)
Query: 180 QVEHEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAK-----MKQRLALLEQGASVNQA 234
E E+++ L+ L + E+ + K +++ +E+ N
Sbjct: 81 TQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN-- 138
Query: 235 TSSKRNSQAE 244
R +
Sbjct: 139 ----RIADKA 144
>2b78_A Hypothetical protein SMU.776; structure genomics,
methyltransferase, caries, structural genomics, unknown
function; 2.00A {Streptococcus mutans} SCOP: b.122.1.9
c.66.1.51 PDB: 3ldf_A*
Length = 385
Score = 29.1 bits (66), Expect = 1.4
Identities = 9/63 (14%), Positives = 24/63 (38%), Gaps = 15/63 (23%)
Query: 140 KRDLWETLADYPEARHSLMERGCQLLRKDGLL---------DEEAFRNSQVEHEALKDTV 190
K++++ DY + L+ +G ++L ++GL+ F+ + +
Sbjct: 300 KKEVFSVSKDYHK----LIRQGLEILSENGLIIASTNAANMTVSQFK--KQIEKGFGKQK 353
Query: 191 RRL 193
Sbjct: 354 HTY 356
>3hrs_A Metalloregulator SCAR; DTXR/MNTR family member, transcription;
2.70A {Streptococcus gordonii} PDB: 3hrt_A 3hru_A
Length = 214
Score = 29.0 bits (65), Expect = 1.5
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 154 RHSLMERGCQLLRKDGLLDEEAFRNS-QVEHEALKDTVRRLDTTLEHLQT 202
+H L+E L+ G EE + +EH V RLD L++ +
Sbjct: 74 KHRLIEV--FLVHHLGYTTEEIHEEAEVLEHTVSDHFVERLDQLLDYPKA 121
>2gfh_A Haloacid dehalogenase-like hydrolase domain conta; structural
genomics, joint center for structural genomics, J
protein structure initiative, PSI-2; 1.90A {Mus
musculus} SCOP: c.108.1.6 PDB: 2w4m_A
Length = 260
Score = 28.6 bits (64), Expect = 1.9
Identities = 15/72 (20%), Positives = 26/72 (36%), Gaps = 2/72 (2%)
Query: 142 DLWETLADYPEARHSLMERGCQLL-RKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHL 200
DL TL D A M +LL K +E +V+ + K+ T + +
Sbjct: 24 DLDNTLIDTAGASRRGMLEVIKLLQSKYHYKEEAEIICDKVQVKLSKECFHPYSTCITDV 83
Query: 201 -QTRFARLMAEY 211
+ + + E
Sbjct: 84 RTSHWEEAIQET 95
>3chh_A P-aminobenzoate N-oxygenase; DI-iron oxygenase, oxidoreductase;
2.00A {Streptomyces thioluteus} PDB: 3chi_A 3cht_A*
3chu_A 2jcd_A
Length = 336
Score = 28.6 bits (63), Expect = 2.6
Identities = 9/67 (13%), Positives = 23/67 (34%), Gaps = 3/67 (4%)
Query: 140 KRDLWETLADYPEARHSLM-ERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLE 198
++ + + + D E+ H+ M R+ + E + V + L+ + + E
Sbjct: 126 RKSVQQAIVD--ESFHTYMHMLAIDRTRELRKISERPPQPELVTYRRLRRVLADMPEQWE 183
Query: 199 HLQTRFA 205
Sbjct: 184 RDIAVLV 190
>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 = 3.1
Identities = 8/33 (24%), Positives = 17/33 (51%), Gaps = 4/33 (12%)
Query: 187 KDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMK 219
K +++L +L+ +A A L+ +A M+
Sbjct: 19 KQALKKLQASLK----LYADDSAPALAIKATME 47
>2qq9_A Diphtheria toxin repressor; regulator, DTXR, helix-turn-helix,
metal ION, ACT DNA-binding, ferrous iron, transcription;
1.71A {Corynebacterium diphtheriae} PDB: 2tdx_A 1ddn_A
1g3t_A 1g3s_A 1g3w_A 2qqa_A 2qqb_A 2dtr_A 1bi0_A 1bi2_A
1bi3_A 1dpr_A 1bi1_A 1fwz_A 1g3y_A 1c0w_A* 3glx_A 1p92_A
1xcv_A 1f5t_A ...
Length = 226
Score = 27.5 bits (61), Expect = 3.8
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 3/59 (5%)
Query: 145 ETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNS-QVEHEALKDTVRRLDTTLEHLQT 202
TLA +H L E L GL + + + EH + RRL L+ +
Sbjct: 69 RTLATAVMRKHRLAE--RLLTDIIGLDINKVHDEADRWEHVMSDEVERRLVKVLKDVSR 125
>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 = 27.3 bits (60), Expect = 4.4
Identities = 6/25 (24%), Positives = 9/25 (36%), Gaps = 3/25 (12%)
Query: 13 NFVFSP--GDYICRK-GDVGKEMYI 34
V GD +C G V + +
Sbjct: 33 KIVERFSEGDVVCALCGLVLSDKLV 57
>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 = 27.9 bits (61), Expect = 4.6
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 11 ALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGE 62
G + +G+ G YI+ +G +NVV + V+ TL G FG+
Sbjct: 56 IFESHAKGGTVLFNQGEEGTSWYIILKGSVNVV-IYGKGVVCTLHEGDDFGK 106
>3mud_A DNA repair protein XRCC4, tropomyosin alpha-1 CHA; tropomysoin,
overlap complex, coiled-coils, contractIle PROT; HET:
DNA; 2.20A {Homo sapiens} PDB: 3sr2_A*
Length = 175
Score = 27.0 bits (59), Expect = 4.7
Identities = 9/40 (22%), Positives = 18/40 (45%)
Query: 188 DTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLEQ 227
DT + + +++ L+ + A E L+ + Q L L
Sbjct: 135 DTTAKNEKSIDDLEEKVAHAKEENLNMHQMLDQTLLELNN 174
>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex,
blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A
{Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB:
1n73_C*
Length = 323
Score = 27.5 bits (61), Expect = 5.0
Identities = 15/92 (16%), Positives = 29/92 (31%), Gaps = 6/92 (6%)
Query: 178 NSQVEHEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSS 237
+ Q + + + VR L+ + L + Q Q + L+Q + T S
Sbjct: 2 SGQKTVQKILEEVRILEQIGVSHDAQIQELSEMWRVNQ----QFVTRLQQQLVDIRQTCS 57
Query: 238 KRNSQAEPTHPEDVRNSKC--LLSPGFLSDGL 267
+ + C ++ G GL
Sbjct: 58 RPCQDTTANKISPITGKDCQQVVDNGGKDSGL 89
>1ez3_A Syntaxin-1A; three helix bundle, endocytosis/exocytosis complex;
1.90A {Rattus norvegicus} SCOP: a.47.2.1 PDB: 1br0_A
3lg7_A*
Length = 127
Score = 26.5 bits (58), Expect = 5.7
Identities = 17/99 (17%), Positives = 37/99 (37%), Gaps = 9/99 (9%)
Query: 123 RTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVE 182
+ + L + K +L E L + + + + + + +E R+S
Sbjct: 32 KRKHSAILASPNPDEKTKEEL-EELMSDIKKTANKVRSKLKSIEQSIEQEEGLNRSSAD- 89
Query: 183 HEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQR 221
+R T L +F +M+EY + Q+ ++R
Sbjct: 90 -------LRIRKTQHSTLSRKFVEVMSEYNATQSDYRER 121
>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus
solfataricus}
Length = 139
Score = 26.1 bits (58), Expect = 7.1
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 4/50 (8%)
Query: 154 RHSLMERGCQLLRKDGLLDEEAFRNS-QVEHEALKDTVRRLDTTLEHLQT 202
H ++E LL G+ + A S Q ++ ++ + +L L
Sbjct: 84 AHRVIEI---LLVNIGIDKQTACEYSKQFDYLIPEEIIDKLYNYLGKPSY 130
>3a6m_A Protein GRPE, HSP-70 cofactor; coiled-coil, four-helix bundle,
dimer, chaperone, STRE response; 3.23A {Thermus
thermophilus}
Length = 177
Score = 26.5 bits (59), Expect = 7.4
Identities = 9/40 (22%), Positives = 23/40 (57%)
Query: 172 DEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFARLMAEY 211
E+ E +AL++ ++ + L+ L+ ++ RL+A++
Sbjct: 10 LEKDLEAVGQEAQALEERLKAAEEELKGLKDKYLRLLADF 49
>1fx7_A Iron-dependent repressor IDER; DTXR, iron-dependent regulator,
signaling protein; 2.00A {Mycobacterium tuberculosis}
SCOP: a.4.5.24 a.76.1.1 b.34.1.2 PDB: 1u8r_A
Length = 230
Score = 26.7 bits (59), Expect = 7.8
Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 3/59 (5%)
Query: 145 ETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNS-QVEHEALKDTVRRLDTTLEHLQT 202
LA +H L E L+ GL EE + + EH +D RRL L + T
Sbjct: 69 RALAIAVMRKHRLAE--RLLVDVIGLPWEEVHAEACRWEHVMSEDVERRLVKVLNNPTT 125
>4dmg_A Putative uncharacterized protein TTHA1493; rRNA, methyltransferase,
S-adenosyl-methionine, 23S ribosoma transferase; HET:
SAM; 1.70A {Thermus thermophilus}
Length = 393
Score = 26.9 bits (60), Expect = 9.0
Identities = 11/54 (20%), Positives = 19/54 (35%), Gaps = 7/54 (12%)
Query: 140 KRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQ-VEHEALKDTVRR 192
+L + L+ +LL ++G L S + E L + RR
Sbjct: 295 PEELPAMKRHLVD----LVREALRLLAEEGFL--WLSSCSYHLRLEDLLEVARR 342
>1evl_A Threonyl-tRNA synthetase; amino acid recognition, zinc ION,
adenylate analog, deletion mutant, ligase; HET: TSB;
1.55A {Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB:
1evk_A* 1fyf_A* 1kog_A*
Length = 401
Score = 26.8 bits (60), Expect = 9.6
Identities = 11/50 (22%), Positives = 22/50 (44%)
Query: 100 KLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLAD 149
K+R+ L +V + + G++ VR+ DL + ++ E L
Sbjct: 340 KIREHTLRRVPYMLVCGDKEVESGKVAVRTRRGKDLGSMDVNEVIEKLQQ 389
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 0.133 0.381
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,162,520
Number of extensions: 243381
Number of successful extensions: 799
Number of sequences better than 10.0: 1
Number of HSP's gapped: 771
Number of HSP's successfully gapped: 124
Length of query: 280
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 188
Effective length of database: 4,133,061
Effective search space: 777015468
Effective search space used: 777015468
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: 57 (25.7 bits)