RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8804
(114 letters)
>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 = 91.1 bits (225), Expect = 7e-23
Identities = 20/74 (27%), Positives = 39/74 (52%)
Query: 2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGS 61
++D+ II+ L G++A + ++LR +C YE + L+ G++ T+WY +L+GS
Sbjct: 34 SEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGS 93
Query: 62 VFIDGSMFLPQSRN 75
+ + S
Sbjct: 94 LDVKVSETSSHQDA 107
Score = 54.1 bits (129), Expect = 5e-10
Identities = 28/62 (45%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQ-ANDVLYYTGELSTSWYILLSG 60
DDL+IIY L ++AL+ +V R L V+ +E H VL+ GE TSWYI+L G
Sbjct: 329 VDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKG 388
Query: 61 SV 62
SV
Sbjct: 389 SV 390
>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 = 59.9 bits (144), Expect = 5e-12
Identities = 20/81 (24%), Positives = 38/81 (46%)
Query: 3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+D+ II+ L G++A + ++LR +C YE + L+ G++ T+WY +L+GS+
Sbjct: 35 EDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSL 94
Query: 63 FIDGSMFLPQSRNFVFNVFSP 83
+ S
Sbjct: 95 DVKVSETSSHQDAVTICTLGI 115
Score = 40.7 bits (94), Expect = 3e-05
Identities = 28/63 (44%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
DDL+IIY L ++AL+ +V R L V+ +E H + VL+ GE TSWYI+L GS
Sbjct: 330 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 389
Query: 62 VFI 64
V +
Sbjct: 390 VNV 392
>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 = 53.5 bits (129), Expect = 1e-10
Identities = 23/63 (36%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
DD++ + +H L A A SV R LC V+ +E QA ++ G+ SWY++L+G+
Sbjct: 9 DDIEQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVILNGT 68
Query: 62 VFI 64
V I
Sbjct: 69 VEI 71
>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 = 52.9 bits (126), Expect = 1e-09
Identities = 28/66 (42%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQ-ANDVLYYTGELSTSWYILLSGS 61
DDL+IIY L ++AL+ +V R L V+ +E H VL+ GE TSWYI+L GS
Sbjct: 25 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 84
Query: 62 VFIDGS 67
V +
Sbjct: 85 VNVVIY 90
>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 = 39.5 bits (93), Expect = 6e-05
Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
S + +L + ++ ++ GE YI++SG V I P R + +
Sbjct: 19 PSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKI--GRRAPDGRENLLTIMG 76
Query: 83 P--VFGLI 88
P +FG +
Sbjct: 77 PSDMFGEL 84
>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 = 38.5 bits (90), Expect = 1e-04
Identities = 10/68 (14%), Positives = 26/68 (38%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
D L ++ + L + GE + + Y ++ GSV + + + + + + +
Sbjct: 59 DPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAV--LIKDEEGKEMILSYLN 116
Query: 83 P--VFGLI 88
G +
Sbjct: 117 QGDFIGEL 124
>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 = 38.0 bits (89), Expect = 2e-04
Identities = 10/68 (14%), Positives = 26/68 (38%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
D L ++ + L + GE + + Y ++ GSV + + + + + + +
Sbjct: 9 DPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAV--LIKDEEGKEMILSYLN 66
Query: 83 P--VFGLI 88
G +
Sbjct: 67 QGDFIGEL 74
>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 = 38.0 bits (89), Expect = 2e-04
Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 4/65 (6%)
Query: 26 LRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSP-- 83
L L R+ A + Y G+ + + ++ GSV I + R + +
Sbjct: 6 LDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTI--LIEDDDGREMIIGYLNSGD 63
Query: 84 VFGLI 88
FG +
Sbjct: 64 FFGEL 68
>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 = 38.0 bits (89), Expect = 2e-04
Identities = 10/68 (14%), Positives = 24/68 (35%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
+ + + ++Y G+L + Y++ SG V + + +
Sbjct: 12 PEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRL--FRTHLGGQERTLALLG 69
Query: 83 P--VFGLI 88
P +FG +
Sbjct: 70 PGELFGEM 77
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 37.3 bits (87), Expect = 2e-04
Identities = 13/66 (19%), Positives = 24/66 (36%), Gaps = 4/66 (6%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
L+ L ++ GE + ++Y L+SG V I P+ + + V +
Sbjct: 25 PVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKI--YRLTPEGQEKILEVTN 82
Query: 83 P--VFG 86
F
Sbjct: 83 ERNTFA 88
>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 = 36.9 bits (86), Expect = 5e-04
Identities = 11/68 (16%), Positives = 24/68 (35%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
+ +R +VV Q ++++ + +++ +G V + S R V
Sbjct: 19 EDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRV--SRVSLGGRERVLGDIY 76
Query: 83 P--VFGLI 88
V G
Sbjct: 77 APGVVGET 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 = 36.5 bits (85), Expect = 6e-04
Identities = 12/68 (17%), Positives = 22/68 (32%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
+ R+ ++ G+ + + Y ++SGSV I R V F
Sbjct: 24 AGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSI--IAEEDDDRELVLGYFG 81
Query: 83 P--VFGLI 88
G +
Sbjct: 82 SGEFVGEM 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 = 36.2 bits (84), Expect = 8e-04
Identities = 5/75 (6%), Positives = 20/75 (26%), Gaps = 10/75 (13%)
Query: 16 EALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRN 75
E Y ++ + + ++ + + +++ + L G + +
Sbjct: 7 EEFKKYLET---NGIKPKQFHKKE---LIFNQWDPQEYCIFLYDGITKL--TSISENGTI 58
Query: 76 FVFNVFSP--VFGLI 88
+ V
Sbjct: 59 MNLQYYKGAFVIMSG 73
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein
structure initiative; 2.00A {Streptomyces coelicolor
A3}
Length = 149
Score = 35.3 bits (82), Expect = 0.001
Identities = 13/66 (19%), Positives = 22/66 (33%), Gaps = 4/66 (6%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
D L + D L++ G+ Y++ G V + P R + V
Sbjct: 18 DEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKL--HRTSPDGRENMLAVVG 75
Query: 83 P--VFG 86
P + G
Sbjct: 76 PSELIG 81
>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 = 35.3 bits (82), Expect = 0.001
Identities = 11/68 (16%), Positives = 27/68 (39%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
+ + +L + + + L+ E + + ++++ G V + P V +VF+
Sbjct: 24 EQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVKL--FRMTPTGSEAVVSVFT 81
Query: 83 P--VFGLI 88
FG
Sbjct: 82 RGESFGEA 89
>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 = 35.1 bits (81), Expect = 0.002
Identities = 10/66 (15%), Positives = 22/66 (33%), Gaps = 4/66 (6%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
+ +R LC ++ + L G+ ++L+G V + +P
Sbjct: 52 NEEVRYLCSYMQCYAAPRDCQLLTEGDPGDYLLLILTGEVNV--IKDIPNKGIQTIAKVG 109
Query: 83 P--VFG 86
+ G
Sbjct: 110 AGAIIG 115
>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 = 34.6 bits (80), Expect = 0.003
Identities = 9/66 (13%), Positives = 19/66 (28%), Gaps = 4/66 (6%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
LR+ ++ + GE TS L+ G + + + +
Sbjct: 22 IEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKL--DIIFEDGSEKLLYYAG 79
Query: 83 P--VFG 86
+ G
Sbjct: 80 GNSLIG 85
>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 = 34.5 bits (80), Expect = 0.003
Identities = 9/68 (13%), Positives = 24/68 (35%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
+ L + ++ + ++ G++ + + L G + I R + +
Sbjct: 23 EEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKI--LREGVYGRFHISRIVK 80
Query: 83 P--VFGLI 88
P FG+
Sbjct: 81 PGQFFGMR 88
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 34.2 bits (79), Expect = 0.004
Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 4/68 (5%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
L+ L ++ GE + ++Y L+SG V I P+ + + V +
Sbjct: 22 PVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKI--YRLTPEGQEKILEVTN 79
Query: 83 P--VFGLI 88
F
Sbjct: 80 ERNTFAEA 87
>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 = 33.8 bits (78), Expect = 0.004
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 9/56 (16%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFI---------DGSMF 69
+VL + R +R A V+ GE + ++ GSV + G+ F
Sbjct: 24 PAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNPVELGPGAFF 79
>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 = 34.3 bits (78), Expect = 0.004
Identities = 16/103 (15%), Positives = 35/103 (33%), Gaps = 3/103 (2%)
Query: 3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSG-- 60
+ + + A D+ + + H A + + G ++Y++ G
Sbjct: 123 KTMTALAKAISKNVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQGNEGDNFYVVDQGEV 182
Query: 61 SVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVSTLW 103
V+++G S F + ++G +V A LW
Sbjct: 183 DVYVNGEWVTNISEGGSFGELALIYGTPRAATVK-AKTDLKLW 224
Score = 31.2 bits (70), Expect = 0.049
Identities = 5/43 (11%), Positives = 16/43 (37%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID 65
++ + + + + + GE +YI+ G+ +
Sbjct: 261 KWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVL 303
>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 = 33.7 bits (78), Expect = 0.005
Identities = 7/63 (11%), Positives = 21/63 (33%), Gaps = 7/63 (11%)
Query: 26 LRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSP-- 83
L +V+ + + +++ + + ILL G++ + + P
Sbjct: 18 LLPCGKVIVFRK---GEIVKHQDDPIEDVLILLEGTLKT--EHVSENGKTLEIDEIKPVQ 72
Query: 84 VFG 86
+
Sbjct: 73 IIA 75
>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 = 33.4 bits (77), Expect = 0.006
Identities = 7/40 (17%), Positives = 16/40 (40%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
D L+ + + + V++ + + +LL G V
Sbjct: 19 DEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGV 58
>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 = 33.6 bits (77), Expect = 0.006
Identities = 5/40 (12%), Positives = 14/40 (35%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
R + + + + G+ +Y++ G+V
Sbjct: 20 SDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTV 59
Score = 30.6 bits (69), Expect = 0.071
Identities = 6/40 (15%), Positives = 17/40 (42%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
L + + +Q + + G+ ++Y++ G+V
Sbjct: 138 TYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAV 177
>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 = 33.4 bits (77), Expect = 0.007
Identities = 7/40 (17%), Positives = 15/40 (37%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ + R +R+ +LY +++ SG V
Sbjct: 17 SEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRV 56
>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 = 33.4 bits (77), Expect = 0.009
Identities = 4/40 (10%), Positives = 13/40 (32%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ R R + H ++ ++++ G +
Sbjct: 13 SPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRL 52
>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 = 33.2 bits (75), Expect = 0.010
Identities = 12/53 (22%), Positives = 24/53 (45%)
Query: 12 LHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFI 64
+ L L S + V+ + + + + G+L+ S++I+ SG V I
Sbjct: 269 IESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVESGEVKI 321
>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 = 33.0 bits (76), Expect = 0.011
Identities = 3/40 (7%), Positives = 15/40 (37%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ + + + + + +++ T ++ SG +
Sbjct: 16 TAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQL 55
>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 = 32.7 bits (75), Expect = 0.014
Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 4/65 (6%)
Query: 26 LRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSP-- 83
+ + E + N +++ G+ + Y LL G+V + S +
Sbjct: 36 MATGAFPPVVETFERNKTIFFPGDPAERVYFLLKGAVKL--SRVYEAGEEITVALLRENS 93
Query: 84 VFGLI 88
VFG++
Sbjct: 94 VFGVL 98
>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 = 31.9 bits (73), Expect = 0.019
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
D LR+L + D++Y+ GE S ++SGS+
Sbjct: 40 DGCLRALAMEFQTVHCAPGDLIYHAGESVDSLCFVVSGSL 79
>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 = 32.3 bits (74), Expect = 0.020
Identities = 7/40 (17%), Positives = 17/40 (42%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ + ++ +++E Q D + G + Y + G V
Sbjct: 85 PNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVV 124
>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 = 32.3 bits (73), Expect = 0.022
Identities = 8/54 (14%), Positives = 19/54 (35%)
Query: 12 LHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID 65
L + L ++ + + + + GE ++I+L GS +
Sbjct: 159 LSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVL 212
>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 = 32.2 bits (73), Expect = 0.024
Identities = 7/40 (17%), Positives = 18/40 (45%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ +L L V+ ++ + + G +++I+ G V
Sbjct: 170 EEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGKV 209
Score = 30.3 bits (68), Expect = 0.096
Identities = 5/40 (12%), Positives = 17/40 (42%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
S ++ + + + + + G++ + Y++ G V
Sbjct: 52 LSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKV 91
>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 = 31.3 bits (71), Expect = 0.026
Identities = 5/40 (12%), Positives = 15/40 (37%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ +L ++C ++ L G+ ++ G +
Sbjct: 19 ERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRL 58
>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 = 31.9 bits (73), Expect = 0.028
Identities = 6/40 (15%), Positives = 15/40 (37%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ + + ++ +E Q D + G + + G V
Sbjct: 84 SNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIV 123
>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 = 31.6 bits (72), Expect = 0.030
Identities = 10/40 (25%), Positives = 18/40 (45%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
LRSL +++ + L G+ + Y + SGS+
Sbjct: 88 RGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGSM 127
>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 = 31.5 bits (72), Expect = 0.038
Identities = 9/59 (15%), Positives = 20/59 (33%), Gaps = 4/59 (6%)
Query: 30 CRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSP--VFG 86
+ + +H+A + + +G T LL G + I ++ V +
Sbjct: 40 KVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISI--VTNAKENIYTVIEQIEAPYLIE 96
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 31.0 bits (71), Expect = 0.044
Identities = 14/54 (25%), Positives = 19/54 (35%), Gaps = 4/54 (7%)
Query: 37 RHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSP--VFGLI 88
R + +Y GE + + Y L G V + LP R P FG
Sbjct: 3 RFARKETIYLRGEEARTLYRLEEGLVRV--VELLPDGRLITLRHVLPGDYFGEE 54
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 31.1 bits (71), Expect = 0.050
Identities = 12/67 (17%), Positives = 21/67 (31%), Gaps = 9/67 (13%)
Query: 26 LRSLCRVVRYERHQANDVLYYTGEL--STSWYILLSGSVFIDGSMFLPQSRNFVFNVFSP 83
+ + V ++ DV+ Y G Y +L G V + + + P
Sbjct: 1 MTQVRETVSFKA---GDVILYPGVPGPRDRAYRVLEGLVRL--EAVDEEGNALTLRLVRP 55
Query: 84 --VFGLI 88
FG
Sbjct: 56 GGFFGEE 62
>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 = 28.5 bits (64), Expect = 0.36
Identities = 5/63 (7%), Positives = 21/63 (33%)
Query: 2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGS 61
+ + + + D+ + + A + + G+ ++Y++ G
Sbjct: 30 YKTMAALAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGE 89
Query: 62 VFI 64
+ +
Sbjct: 90 MDV 92
>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 = 28.9 bits (64), Expect = 0.39
Identities = 18/115 (15%), Positives = 37/115 (32%), Gaps = 30/115 (26%)
Query: 3 DDLQIIY--YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSW------ 54
++L+ +Y Y + + L + L L R + ++ G W
Sbjct: 171 EELRDLYQTYHVL-VGDLIKFSAETLSELIR-----TTLDAEKVFTQGLNILEWLENPSN 224
Query: 55 ----YILLSGSVFIDGSM---FLPQSRNFVFNVFSPVFGLILNPSVSMAAKVSTL 102
LLS + S + Q ++V V + + G P + + +
Sbjct: 225 TPDKDYLLSIPI----SCPLIGVIQLAHYV--VTAKLLG--FTPG-ELRSYLKGA 270
>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 = 28.1 bits (63), Expect = 0.44
Identities = 3/40 (7%), Positives = 16/40 (40%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ + + + + + + G+ ++Y++ G+
Sbjct: 51 PEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTF 90
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 28.1 bits (62), Expect = 0.54
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 15 LEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
+ L SL V+ R A VL GE + S+ ++ SGS
Sbjct: 21 FQGCPAEG---LVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSA 65
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.1 bits (60), Expect = 1.4
Identities = 14/96 (14%), Positives = 33/96 (34%), Gaps = 23/96 (23%)
Query: 16 EALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRN 75
E L P+ S + + +H ++ E LL G+ ++++P++
Sbjct: 930 EDLEPFEAS--KETAEQFK-HQHGDKVDIFEIPETGEYSVKLLKGA-----TLYIPKALR 981
Query: 76 FVFNVFSPVFGLILNPSVSMAAKVSTLWDPGSMFLP 111
F +A ++ T W+ + +
Sbjct: 982 F---------------DRLVAGQIPTGWNAKTYGIS 1002
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 26.6 bits (59), Expect = 1.5
Identities = 10/94 (10%), Positives = 29/94 (30%), Gaps = 18/94 (19%)
Query: 26 LRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV---------------FIDGSMFL 70
L + ++ + + + L TGE+ Y ++ G + F + +L
Sbjct: 26 LSAFFQLKKVRK---KETLLKTGEICRINYFVVKGCLRLFFIDEKGIEQTTQFAIENWWL 82
Query: 71 PQSRNFVFNVFSPVFGLILNPSVSMAAKVSTLWD 104
F + + + ++ + +
Sbjct: 83 SDYMAFQKQQPADFYIQSVENCELLSITYTEQEN 116
>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 = 26.1 bits (58), Expect = 2.0
Identities = 6/46 (13%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGS--VFIDG 66
S ++ + + + + + G++ + Y++ G V +G
Sbjct: 36 LSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKEG 81
>2owm_A Nckin3-434, related to kinesin-like protein KIF1C; motor domain,
ADP, NECK linker, motor PR; HET: ADP; 3.25A {Neurospora
crassa}
Length = 443
Score = 24.6 bits (54), Expect = 8.3
Identities = 7/7 (100%), Positives = 7/7 (100%)
Query: 20 PYRDSVL 26
PYRDSVL
Sbjct: 366 PYRDSVL 372
>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase;
2.90A {Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1
g.41.1.1
Length = 722
Score = 24.7 bits (54), Expect = 9.5
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 33 VRYERHQANDVLYYTG 48
VRY R + DV++ G
Sbjct: 33 VRYLRLKGEDVVFICG 48
>2zfi_A Kinesin-like protein KIF1A, kinesin heavy chain isoform 5C; alpha
and beta protein, enzyme, ATPase, P-loop, motor protein,
ATP-binding, coiled coil; HET: ADP; 1.55A {Mus musculus}
SCOP: c.37.1.9 PDB: 1vfw_A* 1vfx_A* 1vfz_A* 1vfv_A*
2zfj_A* 2zfk_A* 2zfl_A* 2zfm_A* 1i5s_A* 1i6i_A* 2hxf_C*
1ia0_K* 2hxh_C*
Length = 366
Score = 24.4 bits (54), Expect = 9.7
Identities = 7/7 (100%), Positives = 7/7 (100%)
Query: 20 PYRDSVL 26
PYRDSVL
Sbjct: 305 PYRDSVL 311
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
0.325 0.139 0.427
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: 1,748,530
Number of extensions: 87708
Number of successful extensions: 317
Number of sequences better than 10.0: 1
Number of HSP's gapped: 314
Number of HSP's successfully gapped: 61
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.4 bits)