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= psy1560
(175 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1HCN|B Chain B, Structure Of Human Chorionic Gonadotropin At 2.6 Angstroms
Resolution From Mad Analysis Of The Selenomethionyl
Protein
pdb|1HRP|B Chain B, Crystal Structure Of Human Chorionic Gonadotropin
pdb|1QFW|B Chain B, Ternary Complex Of Human Chorionic Gonadotropin With Fv
Anti Alpha Subunit And Fv Anti Beta Subunit
Length = 145
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 114 VCQHGARALKVVILNNCEENVEQGTEVYRYLEALSCKCSVCKSSEASCEGLR 165
VC + + + L C V V Y ALSC+C++C+ S C G +
Sbjct: 56 VCNYRDVRFESIRLPGCPRGVN---PVVSYAVALSCQCALCRRSTTDCGGPK 104
>pdb|3BMA|A Chain A, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
From Streptococcus Pneumoniae R6
pdb|3BMA|B Chain B, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
From Streptococcus Pneumoniae R6
pdb|3BMA|C Chain C, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
From Streptococcus Pneumoniae R6
pdb|3BMA|D Chain D, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
From Streptococcus Pneumoniae R6
pdb|3BMA|E Chain E, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
From Streptococcus Pneumoniae R6
pdb|3BMA|F Chain F, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
From Streptococcus Pneumoniae R6
Length = 407
Score = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 116 QHGARALKVVILNNCEENV---EQGTEVYRYLEALSCKCSVCKSSEASCEGLRYSSYNSL 172
Q +A++ V+ + E+N E G E Y Y E + K S+ S L+ YN L
Sbjct: 219 QFSYQAIEDVVKADAEKNTSNNEMGMENYFYNEQIKKDLKKLKDSQKSFTYLKSPEYNDL 278
Query: 173 NMI 175
++
Sbjct: 279 QLV 281
>pdb|3N5F|A Chain A, Crystal Structure Of L-N-Carbamoylase From Geobacillus
Stearothermophilus Cect43
pdb|3N5F|B Chain B, Crystal Structure Of L-N-Carbamoylase From Geobacillus
Stearothermophilus Cect43
Length = 408
Score = 27.3 bits (59), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 131 EENVEQGTEVYRYLEALSCKCSVCKSSEASCEGLRYSSY 169
E NV TE + + + C V +++EA+C+ L Y S+
Sbjct: 310 ERNVRVTTERLQEMPPVLCSDEVKRAAEAACQKLGYPSF 348
>pdb|3M7R|A Chain A, Crystal Structure Of Vdr H305q Mutant
Length = 253
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 9/45 (20%)
Query: 36 LIMLQSTIGFTLLLFSYCAANQDITLDCHRRVYKYRVSQTDSLGR 80
+IML+S FT+ S+ NQD YKYRVS G+
Sbjct: 100 VIMLRSNESFTMDDMSWTCGNQD---------YKYRVSDVTKAGQ 135
>pdb|1S0Z|A Chain A, Crystal Structure Of The Vdr Lbd Complexed To Seocalcitol.
pdb|1S19|A Chain A, Crystal Structure Of Vdr Ligand Binding Domain Complexed
To Calcipotriol.
pdb|1TXI|A Chain A, Crystal Structure Of The Vdr Ligand Binding Domain
Complexed To Tx522
pdb|2HAM|A Chain A, Crystal Structure Of Vdr Lbd Complexed To 2alpha-Propyl-
Calcitriol
pdb|2HAR|A Chain A, Crystal Structure Of Vdr Lbd In Complex With 2 Alpha-(3-
Hydroxy-1-Propoxy) Calcitriol
pdb|2HAS|A Chain A, Crystal Structure Of Vdr Lbd In Complex With 2alpha-(1-
Propoxy) Calcitriol
pdb|2HB7|A Chain A, Crystal Structure Of Vdr Lbd In Complex With 2alpha(3-
Hydroxy-1-Propyl) Calcitriol
pdb|2HB8|A Chain A, Crystal Structure Of Vdr Lbd In Complex With 2alpha-Methyl
Calcitriol
pdb|3CS4|A Chain A, Structure-Based Design Of A Superagonist Ligand For The
Vitamin D Nuclear Receptor
pdb|3CS6|A Chain A, Structure-Based Design Of A Superagonist Ligand For The
Vitamin D Nuclear Receptor
pdb|3A3Z|X Chain X, Crystal Structure Of The Human Vdr Ligand Binding Domain
Bound To The Synthetic Agonist Compound 2alpha-Methyl-
Amcr277a(C23s)
pdb|3A40|X Chain X, Crystal Structure Of The Human Vdr Ligand Binding Domain
Bound To The Synthetic Agonist Compound 2alpha-Methyl-
Amcr277b(C23r)
pdb|3A78|A Chain A, Crystal Structure Of The Human Vdr Ligand Binding Domain
Bound To The Natural Metabolite
1alpha,25-Dihydroxy-3-Epi-Vitamin D3
pdb|3AUQ|A Chain A, Crystal Structure Of The Human Vitamin D Receptor Ligand
Binding Domain Complexed With Yne-Diene Type Analog Of
Active 14-Epi-2alpha- Methyl-19-Norvitamin D3
pdb|3AUR|A Chain A, Crystal Structure Of The Human Vitamin D Receptor Ligand
Binding Domain Complexed With Yne-Diene Type Analog Of
Active 14-Epi-2beta- Methyl-19-Norvitamin D3
pdb|3AX8|A Chain A, Crystal Structure Of The Human Vitamin D Receptor Ligand
Binding Domain Complexed With
15alpha-Methoxy-1alpha,25-Dihydroxyvitamin D3
Length = 263
Score = 26.2 bits (56), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 9/44 (20%)
Query: 36 LIMLQSTIGFTLLLFSYCAANQDITLDCHRRVYKYRVSQTDSLG 79
+IML+S FT+ S+ NQD YKYRVS G
Sbjct: 106 VIMLRSNESFTMDDMSWTCGNQD---------YKYRVSDVTKAG 140
>pdb|3P8X|A Chain A, Synthesis, Structure, And Biological Activity Of Des-Side
Chain Analogues Of 1alpha,25-Dihydroxyvitamin D3 With
Substituents At C-18
Length = 280
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 9/44 (20%)
Query: 36 LIMLQSTIGFTLLLFSYCAANQDITLDCHRRVYKYRVSQTDSLG 79
+IML+S FT+ S+ NQD YKYRVS G
Sbjct: 123 VIMLRSNESFTMDDMSWTCGNQD---------YKYRVSDVTKAG 157
>pdb|1DB1|A Chain A, Crystal Structure Of The Nuclear Receptor For Vitamin D
Complexed To Vitamin D
pdb|1IE8|A Chain A, Crystal Structure Of The Nuclear Receptor For Vitamin D
Ligand Binding Domain Bound To Kh1060
pdb|1IE9|A Chain A, Crystal Structure Of The Nuclear Receptor For Vitamin D
Ligand Binding Domain Bound To Mc1288
pdb|3OGT|A Chain A, Design, Chemical Synthesis, Functional Characterization
And Crystal Structure Of The Sidechain Analogue Of
1,25-Dihydroxyvitamin D3.
pdb|3KPZ|A Chain A, Crystal Structure Of A Novel Vitamin D3 Analogue, Zk203278
Showing Dissociated Profile
pdb|3TKC|A Chain A, Design, Synthesis, Evaluation And Structure Of Vitamin D
Analogues With Furan Side Chains
pdb|4G2I|A Chain A, Structural Basis For The Accommodation Of Bis- And
Tris-Aromatic Derivatives In Vitamin D Nuclear Receptor
Length = 259
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 9/44 (20%)
Query: 36 LIMLQSTIGFTLLLFSYCAANQDITLDCHRRVYKYRVSQTDSLG 79
+IML+S FT+ S+ NQD YKYRVS G
Sbjct: 102 VIMLRSNESFTMDDMSWTCGNQD---------YKYRVSDVTKAG 136
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
0.324 0.135 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,824,635
Number of Sequences: 62578
Number of extensions: 168218
Number of successful extensions: 354
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 344
Number of HSP's gapped (non-prelim): 11
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)