BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy10539
(109 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1E3K|A Chain A, Human Progesteron Receptor Ligand Binding Domain In
Complex With The Ligand Metribolone (R1881)
pdb|1E3K|B Chain B, Human Progesteron Receptor Ligand Binding Domain In
Complex With The Ligand Metribolone (R1881)
pdb|3D90|A Chain A, Crystal Structure Of The Human Progesterone Receptor
Ligand- Binding Domain Bound To Levonorgestrel
pdb|3D90|B Chain B, Crystal Structure Of The Human Progesterone Receptor
Ligand- Binding Domain Bound To Levonorgestrel
Length = 258
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 14 WVSIVSLGEGWHNYHHV------FPWDY-----RAAEMGSYSLNLTTFWLDQ-FAKI 58
W+S++ G GW +Y HV F D R E YSL LT + + Q F K+
Sbjct: 80 WMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKL 136
>pdb|1SR7|A Chain A, Progesterone Receptor Hormone Binding Domain With Bound
Mometasone Furoate
pdb|1SR7|B Chain B, Progesterone Receptor Hormone Binding Domain With Bound
Mometasone Furoate
pdb|1ZUC|B Chain B, Progesterone Receptor Ligand Binding Domain In Complex
With The Nonsteroidal Agonist Tanaproget
pdb|1ZUC|A Chain A, Progesterone Receptor Ligand Binding Domain In Complex
With The Nonsteroidal Agonist Tanaproget
Length = 259
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 14 WVSIVSLGEGWHNYHHV------FPWDY-----RAAEMGSYSLNLTTFWLDQ-FAKI 58
W+S++ G GW +Y HV F D R E YSL LT + + Q F K+
Sbjct: 81 WMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKL 137
>pdb|3KBA|A Chain A, Progesterone Receptor Bound To Sulfonamide Pyrrolidine
Partial Agonist
pdb|3KBA|B Chain B, Progesterone Receptor Bound To Sulfonamide Pyrrolidine
Partial Agonist
Length = 253
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 14 WVSIVSLGEGWHNYHHV------FPWDY-----RAAEMGSYSLNLTTFWLDQ-FAKI 58
W+S++ G GW +Y HV F D R E YSL LT + + Q F K+
Sbjct: 75 WMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKL 131
>pdb|1A28|A Chain A, Hormone-Bound Human Progesterone Receptor Ligand-Binding
Domain
pdb|1A28|B Chain B, Hormone-Bound Human Progesterone Receptor Ligand-Binding
Domain
pdb|2OVH|A Chain A, Progesterone Receptor With Bound Asoprisnil And A Peptide
From The Co-Repressor Smrt
pdb|2OVM|A Chain A, Progesterone Receptor With Bound Asoprisnil And A Peptide
From The Co-Repressor Ncor
pdb|3HQ5|A Chain A, Progesterone Receptor Bound To An Alkylpyrrolidine Ligand.
pdb|3HQ5|B Chain B, Progesterone Receptor Bound To An Alkylpyrrolidine Ligand
Length = 256
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 14 WVSIVSLGEGWHNYHHV------FPWDY-----RAAEMGSYSLNLTTFWLDQ-FAKI 58
W+S++ G GW +Y HV F D R E YSL LT + + Q F K+
Sbjct: 78 WMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKL 134
>pdb|2W8Y|A Chain A, Ru486 Bound To The Progesterone Receptor In A Destabilized
Agonistic Conformation
pdb|2W8Y|B Chain B, Ru486 Bound To The Progesterone Receptor In A Destabilized
Agonistic Conformation
pdb|3ZR7|A Chain A, Structural Basis For Agonism And Antagonism For A Set Of
Chemically Related Progesterone Receptor Modulators
pdb|3ZR7|B Chain B, Structural Basis For Agonism And Antagonism For A Set Of
Chemically Related Progesterone Receptor Modulators
pdb|3ZRA|A Chain A, Structural Basis For Agonism And Antagonism For A Set Of
Chemically Related Progesterone Receptor Modulators
pdb|3ZRA|B Chain B, Structural Basis For Agonism And Antagonism For A Set Of
Chemically Related Progesterone Receptor Modulators
pdb|3ZRB|A Chain A, Structural Basis For Agonism And Antagonism For A Set Of
Chemically Related Progesterone Receptor Modulators
pdb|3ZRB|B Chain B, Structural Basis For Agonism And Antagonism For A Set Of
Chemically Related Progesterone Receptor Modulators
pdb|4A2J|A Chain A, Pr X-Ray Structures In Agonist Conformations Reveal Two
Different Mechanisms For Partial Agonism In 11beta-
Substituted Steroids
pdb|4A2J|B Chain B, Pr X-Ray Structures In Agonist Conformations Reveal Two
Different Mechanisms For Partial Agonism In 11beta-
Substituted Steroids
pdb|4APU|A Chain A, Pr X-Ray Structures In Agonist Conformations Reveal Two
Different Mechanisms For Partial Agonism In
11beta-Substituted Steroid
pdb|4APU|B Chain B, Pr X-Ray Structures In Agonist Conformations Reveal Two
Different Mechanisms For Partial Agonism In
11beta-Substituted Steroid
Length = 260
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 14 WVSIVSLGEGWHNYHHV------FPWDY-----RAAEMGSYSLNLTTFWLDQ-FAKI 58
W+S++ G GW +Y HV F D R E YSL LT + + Q F K+
Sbjct: 82 WMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKL 138
>pdb|1SQN|A Chain A, Progesterone Receptor Ligand Binding Domain With Bound
Norethindrone
pdb|1SQN|B Chain B, Progesterone Receptor Ligand Binding Domain With Bound
Norethindrone
Length = 261
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 14 WVSIVSLGEGWHNYHHV------FPWDY-----RAAEMGSYSLNLTTFWLDQ-FAKI 58
W+S++ G GW +Y HV F D R E YSL LT + + Q F K+
Sbjct: 83 WMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKL 139
>pdb|3G8O|A Chain A, Progesterone Receptor With Bound Pyrrolidine 1
pdb|3G8O|B Chain B, Progesterone Receptor With Bound Pyrrolidine 1
Length = 263
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 14 WVSIVSLGEGWHNYHHV------FPWDY-----RAAEMGSYSLNLTTFWLDQ-FAKI 58
W+S++ G GW +Y HV F D R E YSL LT + + Q F K+
Sbjct: 85 WMSLMVFGLGWRSYKHVSGQMLYFAPDLILNEQRMKESSFYSLCLTMWQIPQEFVKL 141
>pdb|4GKL|A Chain A, Crystal Structure Of A Noncanonic Maltogenic Alpha-amylase
Amyb From Thermotoga Neapolitana
pdb|4GKL|B Chain B, Crystal Structure Of A Noncanonic Maltogenic Alpha-amylase
Amyb From Thermotoga Neapolitana
Length = 422
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 30 VFPWDYRAAEMGSYSLNLTTFWLDQFAKIGWAYDL 64
V +DY E+ Y +N+ +W+++F G+ D+
Sbjct: 136 VVDFDYSNGELREYMINMMRYWVEEFDVDGFRCDV 170
>pdb|2RAD|A Chain A, Crystal Structure Of The Succinoglycan Biosynthesis
Protein. Northeast Structural Genomics Consortium Target
Bcr135
pdb|2RAD|B Chain B, Crystal Structure Of The Succinoglycan Biosynthesis
Protein. Northeast Structural Genomics Consortium Target
Bcr135
pdb|3B55|A Chain A, Crystal Structure Of The Q81bn2_baccr Protein From
Bacillus Cereus. Nesg Target Bcr135
Length = 451
Score = 26.6 bits (57), Expect = 4.0, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 34/82 (41%), Gaps = 6/82 (7%)
Query: 16 SIVSLGEGWHNYHHVFPWDYRAAEMGSYSLNLTTFWLDQFAKIGWAYDLKKPSDKMIRSH 75
SIV LGE H H VF +R + T L++ GW L+ D+ + +
Sbjct: 76 SIVGLGEATHGAHEVFTXKHRIVKYLVSEKGFTNLVLEE----GWDRALE--LDRYVLTG 129
Query: 76 AEKYAGHDHPVEVTEEDASTMD 97
+ H PV T+E +D
Sbjct: 130 KGNPSQHLTPVFKTKEXLDLLD 151
>pdb|4HTY|A Chain A, Crystal Structure Of A Metagenome-Derived Cellulase Cel5a
pdb|4HU0|A Chain A, Crystal Structure Of A Metagenome-Derived Cellulase Cel5a
In Complex With Cellotetraose
Length = 359
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 56 AKIGWAYDLKKPSDKMIRSHAEKYAGHDHPVEV 88
A WAYDLK+ + I Y H +P +V
Sbjct: 228 AGFNWAYDLKEAAANPIDRQNIAYVSHPYPQKV 260
>pdb|3T41|A Chain A, 1.95 Angstrom Resolution Crystal Structure Of Epidermin
Leader Peptide Processing Serine Protease (Epip) S393a
Mutant From Staphylococcus Aureus
pdb|3T41|B Chain B, 1.95 Angstrom Resolution Crystal Structure Of Epidermin
Leader Peptide Processing Serine Protease (Epip) S393a
Mutant From Staphylococcus Aureus
Length = 471
Score = 25.4 bits (54), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 44/95 (46%), Gaps = 8/95 (8%)
Query: 8 LPSENVWVSIVSLGEGWHNYHHVFPWDYRAAEMGSYSL---NLTTF-WLDQFAKIGWAYD 63
L +EN++ ++G H+YHH + ++ +E YS+ N TF L + + Y+
Sbjct: 13 LGTENLYFQSNAMGSSHHHYHHENLY-FQGSEELYYSVEYKNTATFNKLVKKKSLNVVYN 71
Query: 64 LKK---PSDKMIRSHAEKYAGHDHPVEVTEEDAST 95
+ + KM + HA A + + ++ ST
Sbjct: 72 IPELHVAQIKMTKMHANALANYKNDIKYINATCST 106
>pdb|3MK7|A Chain A, The Structure Of Cbb3 Cytochrome Oxidase
pdb|3MK7|D Chain D, The Structure Of Cbb3 Cytochrome Oxidase
pdb|3MK7|G Chain G, The Structure Of Cbb3 Cytochrome Oxidase
pdb|3MK7|K Chain K, The Structure Of Cbb3 Cytochrome Oxidase
Length = 474
Score = 25.4 bits (54), Expect = 9.3, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 14 WVSIVSLGEGWHNYHHVFPWDYRAAEMGSYSLNLTTFWL 52
WV++VS+G +H+ P + +M S L T FWL
Sbjct: 353 WVAMVSIGA----LYHLVPKVFGREQMHSIGLINTHFWL 387
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.134 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,851,911
Number of Sequences: 62578
Number of extensions: 161319
Number of successful extensions: 654
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 20
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)