RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14743
(86 letters)
>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 = 69.3 bits (170), Expect = 7e-17
Identities = 20/61 (32%), Positives = 33/61 (54%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKVPGSMQK 61
AI N +LD + +I D M+PV +IAG +I++GD G YV++ + V + +
Sbjct: 39 AIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEW 98
Query: 62 V 62
Sbjct: 99 A 99
>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 = 68.9 bits (169), Expect = 1e-16
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
A D KNLD Q+ +++D M+ G +I +GD G YV++
Sbjct: 39 ACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVID 86
>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 = 67.0 bits (164), Expect = 4e-16
Identities = 39/48 (81%), Positives = 44/48 (91%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
AILDNDFMKNL+++QI+EIVDCMYPVEY S IIKEGDVGS+VYVME
Sbjct: 24 AILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVME 71
>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 = 66.1 bits (161), Expect = 7e-15
Identities = 41/54 (75%), Positives = 47/54 (87%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
AILDNDFMKNL+++QI+EIVDCMYPVEY S IIKEGDVGS+VYVME K +V
Sbjct: 40 AILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEV 93
Score = 46.5 bits (110), Expect = 9e-08
Identities = 8/47 (17%), Positives = 20/47 (42%)
Query: 3 ILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
+ ++L + ++ D + Y G II++G G +++
Sbjct: 159 LKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIIS 205
>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 = 62.9 bits (153), Expect = 7e-14
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
+I +N LD R +++C+ G+ IIK+GD G YV+E
Sbjct: 8 SIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVE 55
Score = 45.6 bits (108), Expect = 2e-07
Identities = 13/44 (29%), Positives = 21/44 (47%)
Query: 6 NDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
+K+L ++ D + Y G II+EGD G Y++E
Sbjct: 130 MPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIE 173
>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 = 62.8 bits (152), Expect = 2e-13
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
A D KNLD Q+ +++D M+ G +I +GD G YV++ + +
Sbjct: 146 ACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDI 199
Score = 44.7 bits (105), Expect = 4e-07
Identities = 12/46 (26%), Positives = 27/46 (58%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
K+L++++ ++VD + Y G II +GD+ +++E + K+
Sbjct: 276 KSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVESGEVKI 321
>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 = 60.8 bits (147), Expect = 8e-13
Identities = 20/61 (32%), Positives = 33/61 (54%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKVPGSMQK 61
AI N +LD + +I D M+PV +IAG +I++GD G YV++ + V + +
Sbjct: 40 AIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEW 99
Query: 62 V 62
Sbjct: 100 A 100
Score = 44.2 bits (104), Expect = 5e-07
Identities = 9/49 (18%), Positives = 24/49 (48%)
Query: 1 MAILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVME 49
+ +++LD + + D + PV++ G I+ +G+ G +++
Sbjct: 157 EFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIIL 205
>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 = 59.3 bits (143), Expect = 3e-12
Identities = 20/61 (32%), Positives = 34/61 (55%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKVPGSMQK 61
AI N +LD + +I D M+PV +IAG +I++G+ G YV++ + V + +
Sbjct: 131 AISKNVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQGNEGDNFYVVDQGEVDVYVNGEW 190
Query: 62 V 62
V
Sbjct: 191 V 191
Score = 45.1 bits (106), Expect = 3e-07
Identities = 10/48 (20%), Positives = 24/48 (50%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
+++L+ + + D + PV++ G I+ +G+ G Y++ V
Sbjct: 255 ILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASV 302
>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 = 54.2 bits (129), Expect = 2e-10
Identities = 11/68 (16%), Positives = 22/68 (32%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKVPGSMQK 61
+ + +R+I C Y G + ++GD+G+ Y + V S
Sbjct: 43 RLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETS 102
Query: 62 VPGPMQKV 69
+
Sbjct: 103 SHQDAVTI 110
Score = 45.3 bits (106), Expect = 2e-07
Identities = 11/69 (15%), Positives = 28/69 (40%), Gaps = 1/69 (1%)
Query: 1 MAILDNDFMKNLDMTQIREIVDCM-YPVEYIAGSIIIKEGDVGSIVYVMEGKKYKVPGSM 59
+L + +L T RE+ + + G+++ +G+ G+ Y++ V
Sbjct: 337 DELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYG 396
Query: 60 QKVPGPMQK 68
+ V + +
Sbjct: 397 KGVVCTLHE 405
>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 = 46.9 bits (112), Expect = 2e-08
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 7 DFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ L + EIV + AG++I + G+ G ++ V+EG
Sbjct: 17 PLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGS 62
>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 = 46.2 bits (110), Expect = 4e-08
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 2 AILDNDFMKNLDMTQIREIVDCM-YPVEYIAGSIIIKEGDVGSIVYVME 49
+ N+ M+ RE+ M + V AG+II+++G YV+
Sbjct: 17 FMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVIL 65
>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 = 43.3 bits (102), Expect = 6e-07
Identities = 9/45 (20%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+N+D + I + + P + S +++EGD + + ++ G+
Sbjct: 13 LFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGR 57
>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 = 42.4 bits (100), Expect = 2e-06
Identities = 7/43 (16%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ ++R + M ++ EGD G + ++ G+
Sbjct: 48 GDFSNEEVRYLCSYMQCYAAPRDCQLLTEGDPGDYLLLILTGE 90
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 41.6 bits (97), Expect = 6e-06
Identities = 5/46 (10%), Positives = 19/46 (41%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYVMEGKKYKV 55
+ + + + P+ AG +++++G+ ++ +V
Sbjct: 22 QGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSAEV 67
>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 = 40.0 bits (94), Expect = 8e-06
Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 1 MAILD----NDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
M + F +L Q+++I + GS+I KE + ++EG
Sbjct: 2 MISPERLRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGG 57
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein
structure initiative; 2.00A {Streptomyces coelicolor
A3}
Length = 149
Score = 38.4 bits (90), Expect = 3e-05
Identities = 16/43 (37%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
LD Q E+ M V G + EGD G +Y V EGK
Sbjct: 14 AALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGK 56
>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 = 38.4 bits (90), Expect = 4e-05
Identities = 7/45 (15%), Positives = 14/45 (31%), Gaps = 1/45 (2%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ +R + V G +I G+ + V+ G
Sbjct: 34 AFRLASDGCLRALAMEFQTVHCAPGDLIYHAGESVDSLCFVVSGS 78
>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 = 37.7 bits (88), Expect = 9e-05
Identities = 9/50 (18%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 3 ILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+L ++ +R + + G +I++GD +Y V G
Sbjct: 77 LLQLPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGS 126
>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 = 36.9 bits (86), Expect = 2e-04
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
N D + ++ + + G II+EG +G +Y + G
Sbjct: 79 LFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGV 123
>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 = 36.5 bits (85), Expect = 3e-04
Identities = 6/46 (13%), Positives = 15/46 (32%), Gaps = 1/46 (2%)
Query: 7 DFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ L + GS++ + V+ V++G+
Sbjct: 6 NIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGR 51
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 36.1 bits (84), Expect = 3e-04
Identities = 8/43 (18%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ L Q++E++ V G+ + ++G+ Y ++ G
Sbjct: 21 EPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGC 63
>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 = 36.5 bits (85), Expect = 3e-04
Identities = 8/45 (17%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 8 FMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
F D + +V + + +I+EG G ++ + +G
Sbjct: 78 FFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGI 122
>1o5l_A Transcriptional regulator, CRP family; TM1171, structural GE
JCSG, PSI, protein structure initiative, joint center
for S genomics; 2.30A {Thermotoga maritima} SCOP:
b.82.3.2
Length = 213
Score = 36.4 bits (85), Expect = 3e-04
Identities = 7/43 (16%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ +++++ C + + G I+ + D V ++EG
Sbjct: 8 HHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGT 50
>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 = 36.1 bits (84), Expect = 4e-04
Identities = 8/43 (18%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ ++R ++ GS +I G+ + + ++EGK
Sbjct: 18 NFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGK 60
>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 = 36.1 bits (84), Expect = 4e-04
Identities = 10/43 (23%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ ++ + I + + PV++ G + EG+ G +Y ++ GK
Sbjct: 15 QGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGK 57
>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 = 35.7 bits (83), Expect = 5e-04
Identities = 7/53 (13%), Positives = 21/53 (39%), Gaps = 2/53 (3%)
Query: 1 MAILDN-DFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ L +N+ +RE + + + +++++ G ++ V G
Sbjct: 5 LDDLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGV 57
>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 = 35.7 bits (83), Expect = 5e-04
Identities = 8/52 (15%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 1 MAILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
M + D + ++ L+ + ++ Y +I+ ++V+ V G+
Sbjct: 4 MRLTDTNLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGR 55
>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 = 35.7 bits (83), Expect = 6e-04
Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
L ++ + Y G I +GD+G +Y V GK
Sbjct: 8 HGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGK 50
>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 = 7e-04
Identities = 5/43 (11%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
++L + ++ Y G + + + ++ V++G
Sbjct: 20 RSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGW 62
>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 = 34.9 bits (81), Expect = 0.001
Identities = 7/43 (16%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
K + + + +Y + S +I +G+ +Y +++G
Sbjct: 5 KPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGS 47
>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 = 34.7 bits (80), Expect = 0.001
Identities = 7/43 (16%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
K + + + +Y + S +I +G+ +Y +++G
Sbjct: 55 KPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGS 97
>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 = 34.1 bits (79), Expect = 0.002
Identities = 8/41 (19%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 12 LDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ + + +++ + Y A S II GD ++ +++G
Sbjct: 1 MKLKHLDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGS 41
>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 = 34.2 bits (79), Expect = 0.002
Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 2/53 (3%)
Query: 1 MAILDN-DFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
M+ + +L+ Q + I D + G+II + + V G+
Sbjct: 2 MSFENYFPLWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQ 54
>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 = 0.002
Identities = 8/43 (18%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ L Q++E++ V G+ + ++G+ Y ++ G
Sbjct: 18 EPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGC 60
>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 = 33.0 bits (76), Expect = 0.004
Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
LD I + + Y + + + GD +Y V+ G
Sbjct: 20 LTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGS 62
>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 = 33.0 bits (76), Expect = 0.005
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
L+ + + + P S + EGD+ + ++ + EGK
Sbjct: 19 SLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGK 61
>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 = 31.9 bits (73), Expect = 0.014
Identities = 10/45 (22%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 10 KNLDMTQIREIVDC--MYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
+ L I+D ++ +++ AG IIK G+ + + +++G+
Sbjct: 27 QGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGE 71
>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 = 31.7 bits (71), Expect = 0.017
Identities = 9/38 (23%), Positives = 17/38 (44%)
Query: 10 KNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVYV 47
+ +R+I C Y G + ++GD+G+ Y
Sbjct: 51 EKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYA 88
>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 = 29.4 bits (65), Expect = 0.095
Identities = 9/52 (17%), Positives = 20/52 (38%), Gaps = 10/52 (19%)
Query: 1 MAILDNDFMKNLDMTQIREIVDCMYPV----EYIAGSIIIKEGDVGSIVYVM 48
+++ ++ F+ N D +++ D + E II D S +
Sbjct: 22 LSVFEDAFVDNFD---CKDVQDMPKSILSKEEI---DHIIMSKDAVSGTLRL 67
>2qcv_A Putative 5-dehydro-2-deoxygluconokinase; structural genomic center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: PGE; 1.90A {Bacillus halodurans c-125}
Length = 332
Score = 29.1 bits (66), Expect = 0.14
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 34 IIIKEGDVGSIVYVMEGKKYKVPG 57
I+IK G GS Y G+ Y+
Sbjct: 237 IVIKHGVEGSFAYTKAGEAYRGYA 260
>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 = 28.1 bits (63), Expect = 0.24
Identities = 5/44 (11%), Positives = 17/44 (38%), Gaps = 3/44 (6%)
Query: 11 NLDMTQIREIVD--CMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
N + ++ ++ + P ++ +I + D + +G
Sbjct: 3 NAQAEEFKKYLETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGI 46
>3lhx_A Ketodeoxygluconokinase; structural genomics, PSI-2, protein
structure initiative, NEW YORK SGX research center for
structural genomics; 1.87A {Shigella flexneri}
Length = 319
Score = 27.2 bits (61), Expect = 0.57
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 4/39 (10%)
Query: 31 AGSIIIKEGDVGSIVYVMEGKKYKVPGSMQKVPGPMQKV 69
+++K G +V + VP V P +KV
Sbjct: 224 VKEVVVKRGADSCLVSIAGEALVDVPA----VKLPKEKV 258
>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 = 27.3 bits (60), Expect = 0.58
Identities = 13/84 (15%), Positives = 32/84 (38%), Gaps = 20/84 (23%)
Query: 1 MAILDNDFMKNLDMTQIREIVDCM-----YPVE---Y-IAGSIIIKEGD------VGSIV 45
+AI + ++ +V+ + + VE Y + + GD V +++
Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL 1869
Query: 46 YVMEGKKYK-----VPGSMQKVPG 64
++ +K S+++V G
Sbjct: 1870 NFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 25.4 bits (55), Expect = 2.6
Identities = 11/51 (21%), Positives = 16/51 (31%), Gaps = 17/51 (33%)
Query: 25 YPVEYIAGSIIIKEGDVGSIVYVMEGKKYKVPGSMQKVPGPMQKVPGPMQK 75
YP + SI+ + EG VP PM + Q+
Sbjct: 314 YPNTSLPPSILEDSLENN------EG-----------VPSPMLSISNLTQE 347
>3op3_A M-phase inducer phosphatase 3; structural genomics, structural
genomics consortium, SGC, Al alpha sandwich, kinase,
cytosol, hydrolase; 2.63A {Homo sapiens}
Length = 216
Score = 27.0 bits (59), Expect = 0.75
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 3/33 (9%)
Query: 2 AILDNDFMKNLDMTQIREIVDCMYPVEYIAGSI 34
A+L F ++ + +DC YP EY+ G I
Sbjct: 66 ALLSGKFQGLIEKFYV---IDCRYPYEYLGGHI 95
>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 = 26.5 bits (59), Expect = 1.0
Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 2/52 (3%)
Query: 1 MAILDNDFMKNLDMTQIREIVDCMYPVEYIAGSIIIKEGDVGSIVY-VMEGK 51
M + + + N+ Q+ + I GD VY +++G
Sbjct: 21 MIVTQDKALANV-FRQMATGAFPPVVETFERNKTIFFPGDPAERVYFLLKGA 71
>1qb0_A Protein (M-phase inducer phosphatase 2 (CDC25B)); hydrolase, cell
cycle phosphatase, dual specificity protein
phosphatase; 1.91A {Homo sapiens} SCOP: c.46.1.1 PDB:
1cwr_A 1cws_A 2uzq_A
Length = 211
Score = 26.6 bits (58), Expect = 1.1
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 20 IVDCMYPVEYIAGSI 34
IVDC YP EY G I
Sbjct: 68 IVDCRYPYEYEGGHI 82
>2a2k_A M-phase inducer phosphatase 2; dual specificity, substrate
trapping, active site mutant, hydrolase; 1.52A {Homo
sapiens} PDB: 2ifv_A 1ymd_A 1ym9_A 1ymk_A 1yml_A 1ys0_A
1cwt_A 2ifd_A
Length = 175
Score = 25.7 bits (56), Expect = 2.0
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 20 IVDCMYPVEYIAGSI 34
IVDC YP EY G I
Sbjct: 48 IVDCRYPYEYEGGHI 62
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 25.2 bits (56), Expect = 2.5
Identities = 5/24 (20%), Positives = 9/24 (37%), Gaps = 1/24 (4%)
Query: 29 YIAGSIIIKEGDVGSIVY-VMEGK 51
+ I G+ +Y + EG
Sbjct: 4 FARKETIYLRGEEARTLYRLEEGL 27
>1c25_A CDC25A; hydrolase, cell cycle phosphatase,dual specificity
protein phosphatase, CDK2; 2.30A {Homo sapiens} SCOP:
c.46.1.1
Length = 161
Score = 25.4 bits (55), Expect = 2.6
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 20 IVDCMYPVEYIAGSI 34
I+DC YP EY G I
Sbjct: 47 IIDCRYPYEYEGGHI 61
>2pkf_A Adenosine kinase; transferase, S genomics, TB structural genomics
consortium, TBSGC; 1.50A {Mycobacterium tuberculosis}
PDB: 2pkk_A* 2pkm_A* 2pkn_A*
Length = 334
Score = 24.6 bits (54), Expect = 5.5
Identities = 4/27 (14%), Positives = 7/27 (25%)
Query: 31 AGSIIIKEGDVGSIVYVMEGKKYKVPG 57
+ G G + +G V
Sbjct: 227 IDLRVTTLGPKGVDLVEPDGTTIHVGV 253
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
0.319 0.139 0.403
Gapped
Lambda K H
0.267 0.0568 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,331,466
Number of extensions: 70372
Number of successful extensions: 180
Number of sequences better than 10.0: 1
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 61
Length of query: 86
Length of database: 6,701,793
Length adjustment: 54
Effective length of query: 32
Effective length of database: 5,194,059
Effective search space: 166209888
Effective search space used: 166209888
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.8 bits)