RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy678
(60 letters)
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains,
allosteric regulation hydrolase, membrane; 3.02A {Homo
sapiens}
Length = 691
Score = 48.1 bits (114), Expect = 1e-08
Identities = 12/42 (28%), Positives = 24/42 (57%)
Query: 16 LLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57
LL+V +LF + ++ +I+ A++L E +V L+D+
Sbjct: 183 LLQVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLDQ 224
Score = 39.3 bits (91), Expect = 1e-05
Identities = 10/60 (16%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 1 MQRAQSLLK-CENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59
M+ + + K+L++ +L++ + +K++Q Q + +LL+ E +
Sbjct: 1 MEDQKGGAAYTDRDRKILQLCGELYD--LDASSLQLKVLQYLQQETRASRCCLLLVSEDN 58
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle
dysfunction, inhibitor design, allosteric enzyme,
alternative splicing, CGMP binding; HET: WAN; 2.00A
{Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A
2k31_A*
Length = 878
Score = 47.1 bits (111), Expect = 2e-08
Identities = 17/56 (30%), Positives = 31/56 (55%)
Query: 5 QSLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESSS 60
SLL+ + LL++ +FEEQ S+E ++ KI S ++ + + ++DE S
Sbjct: 325 TSLLENKRNQVLLDLASLIFEEQQSLEVILKKIAATIISFMQVQKCTIFIVDEDCS 380
Score = 36.3 bits (83), Expect = 2e-04
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 11 ENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESSS 60
+ ++LLE+V D+ + + KI L+ + ++ L+ E SS
Sbjct: 150 DQCSRLLELVKDISSH-LDVTALCHKIFLHIHGLISADRYSLFLVCEDSS 198
>3dba_A CONE CGMP-specific 3',5'-cyclic phosphodiesterase alpha'; 3', GAF
domain, cyclic nucleotide phosphodiesterase hydrolase,
lipoprotein, membrane; HET: 35G; 2.57A {Gallus gallus}
Length = 180
Score = 41.7 bits (98), Expect = 1e-06
Identities = 12/53 (22%), Positives = 28/53 (52%)
Query: 8 LKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESSS 60
++ E L E++ ++ +E S+E++V K +QR LL + ++ + +
Sbjct: 1 MRLEECNILFELLTEIQDEAGSMEKIVHKTLQRLSQLLAADRCSMFICRSRNG 53
>2e4s_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphodiesterase 10A;
GAF domain, structural genomics, NPPSFA; HET: MSE CMP;
2.10A {Homo sapiens} PDB: 2zmf_A*
Length = 189
Score = 38.9 bits (91), Expect = 1e-05
Identities = 13/55 (23%), Positives = 27/55 (49%)
Query: 3 RAQSLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57
+ S + E LL+V F+ +I+ ++ IM A++L+ + A+ +D
Sbjct: 2 SSGSSGQTELNDFLLDVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDH 56
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5'
guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus
musculus} SCOP: d.110.2.1 d.110.2.1
Length = 368
Score = 33.8 bits (77), Expect = 0.001
Identities = 9/37 (24%), Positives = 20/37 (54%)
Query: 21 HDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57
+LF + ++ +I+ A++L E +V L+D+
Sbjct: 188 KNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLDQ 224
Score = 33.1 bits (75), Expect = 0.002
Identities = 10/47 (21%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 11 ENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57
++ K+L++ +LF+ + +K++Q Q + + +LL+ E
Sbjct: 11 DHDRKILQLCGELFD--LDATSLQLKVLQYLQQETQATHCCLLLVSE 55
>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal
transduction; HET: MSE; 1.65A {Coxiella burnetii}
Length = 171
Score = 30.0 bits (68), Expect = 0.022
Identities = 9/51 (17%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 12 NAAKLLEVVHDLFEEQTS---IEQVVVKIMQRAQSLLKCENAAVLLIDESS 59
NA +L+++ + +E + +EQ + ++ R L + ++ + D+
Sbjct: 2 NAMNMLKILRQITQEVNAAPNLEQALKLVVVRLCEALPADACSLFICDDVH 52
>3oov_A Methyl-accepting chemotaxis protein, putative; structural
genomics, PSI-2, protein structure initiative; 2.20A
{Geobacter sulfurreducens}
Length = 169
Score = 30.0 bits (68), Expect = 0.025
Identities = 5/44 (11%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 16 LLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59
++ + + +++V+ + +L E +L+ D +
Sbjct: 4 FHQISSRIQKS-IDVDEVLRLCAEGLHDVLGYERVNILMADTAR 46
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase;
HET: CMP; 1.90A {Anabaena SP}
Length = 398
Score = 29.8 bits (66), Expect = 0.030
Identities = 9/57 (15%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 1 MQRAQSLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57
+ + L+ + + L ++ E +++++ I + LL + + L+DE
Sbjct: 1 VTEVEQKLQIVH--QTLSMLDSHGFENI-LQEMLQSITLKTGELLGADRTTIFLLDE 54
Score = 25.6 bits (55), Expect = 1.0
Identities = 12/49 (24%), Positives = 25/49 (51%)
Query: 9 KCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57
K AA +++ V L + +E + ++M A+ L+ + + + LID
Sbjct: 194 KQRAAAAMMKAVKSLSQSSLDLEDTLKRVMDEAKELMNADRSTLWLIDR 242
>2w3g_A DOSS, two component sensor histidine kinase DEVS (GAF family
protein); redox sensor, heme, hypoxia, GAF domain,
transferase; HET: HEM; 1.40A {Mycobacterium
tuberculosis} PDB: 2w3d_A* 2w3f_A* 2w3e_A* 2w3h_A*
2y79_A* 2y8h_A* 2vzw_A*
Length = 153
Score = 28.4 bits (64), Expect = 0.070
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 30 IEQVVVKIMQRAQSLLKCENAAVLLIDE 57
+E + I+ A SL+ A+ + D
Sbjct: 7 LEATLRAIVHSATSLVDARYGAMEVHDR 34
>3ci6_A Phosphoenolpyruvate-protein phosphotransferase;
PEP-phosphotransferase, GAF domain, structura genomics,
PSI-2, protein structure initiative; HET: MSE P4G;
1.55A {Acinetobacter SP}
Length = 171
Score = 28.4 bits (64), Expect = 0.091
Identities = 7/50 (14%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 13 AAKLLEVVHDLFEEQTS---IEQVVVKIMQRAQSLLKCENAAVLLIDESS 59
+ L+ + + +E S + + ++ + +K + ++ L+DE +
Sbjct: 5 SNMQLDTLRRIVQEINSSVSLHDSLDIMVNQVADAMKVDVCSIYLLDERN 54
>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 = 0.17
Identities = 7/35 (20%), Positives = 14/35 (40%), Gaps = 15/35 (42%)
Query: 5 QSLLKCENAAKL--------LEVVHDLFEEQTSIE 31
Q+L K + + KL L + + ++E
Sbjct: 20 QALKKLQASLKLYADDSAPALAI-------KATME 47
Score = 26.5 bits (57), Expect = 0.52
Identities = 8/37 (21%), Positives = 18/37 (48%), Gaps = 12/37 (32%)
Query: 25 EEQTSIEQVVVKIMQRAQSLLKC---ENAAVLLIDES 58
E+Q +++++ Q+ LK ++A L I +
Sbjct: 18 EKQ-ALKKL--------QASLKLYADDSAPALAIKAT 45
Score = 25.3 bits (54), Expect = 1.1
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 42 QSLLKCENAAVLLIDESS 59
Q+L K + + L D+S+
Sbjct: 20 QALKKLQASLKLYADDSA 37
>3hcy_A Putative two-component sensor histidine kinase PR; two-component
sensor histidine kinase protein, structural GE PSI,
MCSG; 2.80A {Sinorhizobium meliloti}
Length = 151
Score = 25.7 bits (57), Expect = 0.81
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 29 SIEQVVVKIMQRAQSLLKCENAAVLLIDES 58
+IE+V + Q L C+ A++LL DE+
Sbjct: 3 AIEEVYEATLDAIQGALNCDRASILLFDEA 32
>3vaa_A Shikimate kinase, SK; structural genomics, center for structural
genomics of infec diseases, csgid, metal binding,
transferase; 1.70A {Bacteroides thetaiotaomicron}
Length = 199
Score = 25.7 bits (57), Expect = 0.85
Identities = 8/55 (14%), Positives = 20/55 (36%), Gaps = 15/55 (27%)
Query: 7 LLKCENAAKLLEVVHDLFEE---------------QTSIEQVVVKIMQRAQSLLK 46
+L+ + +L++ + E+ + + +QR Q LL+
Sbjct: 144 ILQGKEDDELMDFIIQALEKRAPFYTQAQYIFNADELEDRWQIESSVQRLQELLE 198
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 25.4 bits (55), Expect = 1.2
Identities = 9/29 (31%), Positives = 17/29 (58%)
Query: 29 SIEQVVVKIMQRAQSLLKCENAAVLLIDE 57
E++ + I++RA K + V++IDE
Sbjct: 79 YFEELAIPILERAYREAKKDRRKVIIIDE 107
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 24.9 bits (54), Expect = 1.9
Identities = 12/56 (21%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 11 ENAAKLLEVVHDLFEEQTSIEQVVV---------KIMQRAQSLLKCENAAVLLIDE 57
+ K+ EVV + + ++S+E+++ ++ + Q L+K V I+E
Sbjct: 868 DWKWKVAEVVSEKRDFKSSMEELMKDSEIRKHGKEVAKIVQKLIKERTFDVKRINE 923
>3eea_A GAF domain/HD domain protein; structural genomics, PSI, MCSG,
protein structure initiative, midwest center for
structural genomics; HET: PG6; 1.80A {Geobacter
sulfurreducens}
Length = 162
Score = 24.7 bits (54), Expect = 1.9
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 16 LLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57
L+E L T +++V+ + + + L+K AV D
Sbjct: 1 LIEGSERLSGL-TDVDEVIKDLSRLLRKLVKTRWIAVYFFDR 41
>3o5y_A Sensor protein; GAF domain, histidine, kinase, PSI, MCSG,
structural genomics, midwest center for structural
genomics, protein S initiative; 2.45A {Bacillus
halodurans}
Length = 165
Score = 24.2 bits (53), Expect = 2.3
Identities = 4/31 (12%), Positives = 17/31 (54%)
Query: 29 SIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59
S++ ++ ++ + + L+ + + LL+ +
Sbjct: 5 SLDDIINNMIDKLKLLVHFDRISFLLLANET 35
>3e0y_A Conserved domain protein; APC87688.2, geobacter sulfurreducens
PCA, structural genomics, PSI-2, midwest center for
structural G MCSG; 3.10A {Geobacter sulfurreducens}
Length = 181
Score = 23.8 bits (52), Expect = 3.4
Identities = 5/57 (8%), Positives = 22/57 (38%), Gaps = 3/57 (5%)
Query: 4 AQSLLKCENAAKLLEVVHDLFEEQTS---IEQVVVKIMQRAQSLLKCENAAVLLIDE 57
+ ++ + + + ++ +S + +V+ + + + LK + L +
Sbjct: 1 SNAMQRANREHLEIISLEEISMLVSSDFDLPEVLQHVTAKVATQLKVSVCNIYLREG 57
>2vjw_A GAF-B, GAF family protein; histidine kinase, hypoxia sensing,
hydrolase; HET: MSE; 2.0A {Mycobacterium smegmatis}
PDB: 2vks_A
Length = 149
Score = 23.2 bits (50), Expect = 5.5
Identities = 4/28 (14%), Positives = 9/28 (32%)
Query: 31 EQVVVKIMQRAQSLLKCENAAVLLIDES 58
V + A +L + V + +
Sbjct: 3 ATVFRLVAAEALTLTGADGTLVAVPADP 30
>2cqz_A 177AA long hypothetical protein; hypothetical proteins, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii}
Length = 177
Score = 22.7 bits (48), Expect = 9.1
Identities = 9/47 (19%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 1 MQRAQSLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKC 47
+A++L+ + + E+ + ++E +S E +V+I + +L+
Sbjct: 90 KDKAEALVFKKVFPEFYELYRE-YQECSSPEAQLVRIADKLDMILQA 135
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
0.316 0.126 0.317
Gapped
Lambda K H
0.267 0.0764 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 772,023
Number of extensions: 30465
Number of successful extensions: 124
Number of sequences better than 10.0: 1
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 30
Length of query: 60
Length of database: 6,701,793
Length adjustment: 31
Effective length of query: 29
Effective length of database: 5,836,242
Effective search space: 169251018
Effective search space used: 169251018
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: 51 (23.4 bits)