RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9108
(98 letters)
>1ckk_B Camkk, protein (RAT Ca2+/calmodulin dependent protein kinase);
complex (calmodulin/peptide), calmodulin-peptide
complex; NMR {Rattus norvegicus}
Length = 26
Score = 28.9 bits (64), Expect = 0.038
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 74 IKNFPKLDTLILIKTMLKNHSFQN 97
+K P T+IL+K+ML+ SF N
Sbjct: 1 VKLIPSWTTVILVKSMLRKRSFGN 24
>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 = 30.0 bits (67), Expect = 0.094
Identities = 15/47 (31%), Positives = 18/47 (38%), Gaps = 18/47 (38%)
Query: 17 TQPA---------NENRGKFLVRIVAIKAGVHKEHSWVTKDGAY-AL 53
TQPA + + K L+ A AG HS G Y AL
Sbjct: 1732 TQPALTLMEKAAFEDLKSKGLIPADATFAG----HSL----GEYAAL 1770
>1iq5_B Ca2+/calmodulin dependent kinase kinase; EF-hand, protein-peptide
complex, metal binding protein/protein binding complex;
1.80A {Xenopus laevis}
Length = 27
Score = 26.1 bits (57), Expect = 0.40
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 74 IKNFPKLDTLILIKTMLKNHSFQN 97
++ P+LDTLIL+K M F N
Sbjct: 1 VRVIPRLDTLILVKAMGHRKRFGN 24
>3ewm_A Uncharacterized sugar kinase PH1459; carbohydrate kinase, PFKB
family, PSI-II, NYSGXRC, structural genomics, protein
structure initiative; 1.90A {Pyrococcus horikoshii} PDB:
3ih0_A* 3gbu_A*
Length = 313
Score = 26.0 bits (58), Expect = 2.0
Identities = 5/14 (35%), Positives = 9/14 (64%)
Query: 45 VTKDGAYALPTEEE 58
K GA++ P ++E
Sbjct: 280 TQKRGAWSTPRKDE 293
>2f96_A Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolase, SAD, PS
protein structure initiative, midwest center for
structural genomics; 2.09A {Pseudomonas aeruginosa}
SCOP: c.55.3.5
Length = 224
Score = 25.5 bits (56), Expect = 2.7
Identities = 6/24 (25%), Positives = 6/24 (25%)
Query: 71 RNVIKNFPKLDTLILIKTMLKNHS 94
RN F DT L
Sbjct: 152 RNPFHPFSSFDTATLAGLAYGQTV 175
>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 = 25.4 bits (56), Expect = 3.0
Identities = 7/40 (17%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 50 AYALPTEEENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
A A +L++ + V +K P+L ++++++ +
Sbjct: 112 AVAF----TPVELLSAPIEQVEQALKENPEL-SMLMLRGL 146
>2y94_A 5'-AMP-activated protein kinase catalytic subunit; transferase,
nucleotide-binding, staurosporine-binding,
serine/threonine-protein kinase; HET: TPO STU AMP; 3.24A
{Rattus norvegicus}
Length = 476
Score = 25.5 bits (56), Expect = 3.2
Identities = 8/38 (21%), Positives = 18/38 (47%)
Query: 40 KEHSWVTKDGAYALPTEEENCQLVTVSEDDVRNVIKNF 77
+EH W +D L E+ + + ++ ++ V + F
Sbjct: 265 REHEWFKQDLPKYLFPEDPSYSSTMIDDEALKEVCEKF 302
>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 = 25.3 bits (56), Expect = 4.0
Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 5/40 (12%)
Query: 50 AYALPTEEENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
A C++ +S R +I+ P + + L M
Sbjct: 87 VRAK----TACEVAEISYKKFRQLIQVNPDI-LMRLSAQM 121
>3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP),
dimer, inactive(APO, unliganded allostery, DNA binding,
cyclic AMP; 2.00A {Mycobacterium tuberculosis} PDB:
3i54_A* 3i59_A* 3mzh_A* 3h3u_A* 3r6s_A*
Length = 227
Score = 24.9 bits (55), Expect = 4.6
Identities = 7/40 (17%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 50 AYALPTEEENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
A + + V++ D +R+ I + P++ + L++ +
Sbjct: 96 ATTI----TEVRAVSMDRDALRSWIADRPEI-SEQLLRVL 130
>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 = 25.0 bits (55), Expect = 4.6
Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 5/40 (12%)
Query: 50 AYALPTEEENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
A C++ +S R +I+ P + + L M
Sbjct: 137 VRAK----TACEVAEISYKKFRQLIQVNPDI-LMRLSAQM 171
>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 = 24.5 bits (54), Expect = 5.8
Identities = 6/32 (18%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 58 ENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
E+ ++ + +N++ FP +L ++K +
Sbjct: 90 EDTTILYTDIRNFQNIVVEFPAF-SLNMVKVL 120
>2oz6_A Virulence factor regulator; winged helix, helix-turn-helix,
transcription factor, CAMP-B proteins, CAMP receptor
protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP:
a.4.5.4 b.82.3.2
Length = 207
Score = 24.5 bits (54), Expect = 5.9
Identities = 6/40 (15%), Positives = 13/40 (32%), Gaps = 5/40 (12%)
Query: 50 AYALPTEEENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
A C++ +S R + + ++ L M
Sbjct: 84 VRAK----VECEVAEISYAKFRELSQQDSEI-LYTLGSQM 118
>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 = 24.4 bits (53), Expect = 6.2
Identities = 3/22 (13%), Positives = 9/22 (40%)
Query: 58 ENCQLVTVSEDDVRNVIKNFPK 79
+ + D+++ V F +
Sbjct: 110 TEVEAFALIADELKFVASQFRR 131
>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 = 24.2 bits (53), Expect = 6.5
Identities = 9/59 (15%), Positives = 20/59 (33%), Gaps = 13/59 (22%)
Query: 35 KAGVHKEHSWVTKDGAY----ALPTEE---------ENCQLVTVSEDDVRNVIKNFPKL 80
V + GA+ AL + E L+++ D + + + P++
Sbjct: 62 SVSVATPNPVELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQMLCSSSPEI 120
>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 = 24.5 bits (54), Expect = 6.6
Identities = 8/40 (20%), Positives = 18/40 (45%), Gaps = 5/40 (12%)
Query: 50 AYALPTEEENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
A A+ E+ +L+ + +D +I+ P + L +
Sbjct: 89 AVAV----EDTELLALFREDYLALIRRLPLV-AHNLAALL 123
>1ps9_A 2,4-dienoyl-COA reductase; iron-sulfur, TIM barrel, flavodoxin,
flavin, electron transfer, hydride transfer,
oxidoreductase; HET: FAD FMN NAP MDE; 2.20A {Escherichia
coli} SCOP: c.1.4.1 c.3.1.1 c.4.1.1
Length = 671
Score = 24.6 bits (54), Expect = 7.7
Identities = 7/18 (38%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 22 ENRGKFLVRIV-AIKAGV 38
NR +F V +V A++ V
Sbjct: 188 RNRMRFAVEVVRAVRERV 205
>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 = 24.2 bits (53), Expect = 8.0
Identities = 6/32 (18%), Positives = 11/32 (34%), Gaps = 1/32 (3%)
Query: 58 ENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
E + SE +R V + + + K
Sbjct: 100 EPTRTCWFSEKSLRTVFRTDEDM-IFEIFKNY 130
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 24.2 bits (53), Expect = 8.4
Identities = 6/32 (18%), Positives = 11/32 (34%), Gaps = 1/32 (3%)
Query: 58 ENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
QL S +++ L L L+ +
Sbjct: 107 VPSQLFRFSNKAYLRQLQDNTPL-ALALLAKL 137
>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 = 24.1 bits (53), Expect = 9.3
Identities = 6/40 (15%), Positives = 17/40 (42%), Gaps = 5/40 (12%)
Query: 50 AYALPTEEENCQLVTVSEDDVRNVIKNFPKLDTLILIKTM 89
A A+ EN +++ + + + ++K +K +
Sbjct: 100 AIAV----ENSKVLAIPVEAIEALLKGNTSF-CRYFLKAL 134
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 0.134 0.398
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: 1,437,500
Number of extensions: 70603
Number of successful extensions: 197
Number of sequences better than 10.0: 1
Number of HSP's gapped: 197
Number of HSP's successfully gapped: 31
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
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 (21.8 bits)
S2: 51 (23.4 bits)