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= 014836
(417 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ICX|A Chain A, Crystal Structure Of A Putative Udp-Glucose
Pyrophosphorylase From Arabidopsis Thaliana With Bound
Utp
pdb|2ICX|B Chain B, Crystal Structure Of A Putative Udp-Glucose
Pyrophosphorylase From Arabidopsis Thaliana With Bound
Utp
pdb|2ICY|A Chain A, Crystal Structure Of A Putative Udp-Glucose
Pyrophosphorylase From Arabidopsis Thaliana With Bound
Udp- Glucose
pdb|2ICY|B Chain B, Crystal Structure Of A Putative Udp-Glucose
Pyrophosphorylase From Arabidopsis Thaliana With Bound
Udp- Glucose
Length = 469
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 109 RPEKDYQYWRWQPHGCDLPSFNATLMLETL--RGKRMMFVGDSLNRGQYVSMVCLLHRLI 166
+ + D + W HG P+ + L+T +GK +FV +S N G V + L H +
Sbjct: 179 KGKTDKEGWYPPGHGDVFPALMNSGKLDTFLSQGKEYVFVANSDNLGAIVDLTILKHLIQ 238
Query: 167 PENAKSMET 175
+N ME
Sbjct: 239 NKNEYCMEV 247
>pdb|1Z90|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At3g03250, A Putative Udp-Glucose Pyrophosphorylase
pdb|1Z90|B Chain B, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At3g03250, A Putative Udp-Glucose Pyrophosphorylase
pdb|2Q4J|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At3g03250, A
Putative Udp-Glucose Pyrophosphorylase
pdb|2Q4J|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At3g03250, A
Putative Udp-Glucose Pyrophosphorylase
Length = 469
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 109 RPEKDYQYWRWQPHGCDLPSFNATLMLETL--RGKRMMFVGDSLNRGQYVSMVCLLHRLI 166
+ + D + W HG P+ + L+T +GK +FV +S N G V + L H +
Sbjct: 179 KGKTDKEGWYPPGHGDVFPALMNSGKLDTFLSQGKEYVFVANSDNLGAIVDLTILKHLIQ 238
Query: 167 PENAKSMET 175
+N ME
Sbjct: 239 NKNEYCMEV 247
>pdb|3R2W|A Chain A, Crystal Strucutre Of Udp-Glucose Pyrophosphorylase Of Homo
Sapiens
pdb|3R2W|B Chain B, Crystal Strucutre Of Udp-Glucose Pyrophosphorylase Of Homo
Sapiens
pdb|3R2W|C Chain C, Crystal Strucutre Of Udp-Glucose Pyrophosphorylase Of Homo
Sapiens
pdb|3R2W|D Chain D, Crystal Strucutre Of Udp-Glucose Pyrophosphorylase Of Homo
Sapiens
pdb|3R3I|A Chain A, Crystal Structure Of C-Terminal Truncation Of Udp-Glucose
Pyrophosphorylase Of Homo Sapiens
pdb|3R3I|B Chain B, Crystal Structure Of C-Terminal Truncation Of Udp-Glucose
Pyrophosphorylase Of Homo Sapiens
pdb|3R3I|C Chain C, Crystal Structure Of C-Terminal Truncation Of Udp-Glucose
Pyrophosphorylase Of Homo Sapiens
pdb|3R3I|D Chain D, Crystal Structure Of C-Terminal Truncation Of Udp-Glucose
Pyrophosphorylase Of Homo Sapiens
Length = 528
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 48/190 (25%), Positives = 72/190 (37%), Gaps = 33/190 (17%)
Query: 119 WQP--HGCDLPSFNATLMLETL--RGKRMMFVGDSLNRGQYVSMVCLLHRLIPENAKSME 174
W P HG SF + +L+T GK +FV + N G V + L H + P N K E
Sbjct: 238 WYPPGHGDIYASFYNSGLLDTFIGEGKEYIFVSNIDNLGATVDLYILNHLMNPPNGKRCE 297
Query: 175 TFDSLTVFTAKDY-NATIEFYWAPFLLESNSDNAVVHRISDRIVRKGSINK-HGRNWKGV 232
+T T D T+ Y R+V + K H +K V
Sbjct: 298 FVMEVTNKTRADVKGGTLTQYEGKL----------------RLVEIAQVPKAHVDEFKSV 341
Query: 233 DIL-VFNTYLWWMTGLKMKILKGSFDDEEKEIVEIPT----------EDAYRMAMKSMLR 281
+FNT W++ +K L+ + + IV T E A A+KS
Sbjct: 342 SKFKIFNTNNLWISLAAVKRLQEQNAIDMEIIVNAKTLDGGLNVIQLETAVGAAIKSFEN 401
Query: 282 WVKLNMDRKK 291
+ +N+ R +
Sbjct: 402 SLGINVPRSR 411
>pdb|1NST|A Chain A, The Sulfotransferase Domain Of Human Haparin Sulfate N-
DeacetylaseN-Sulfotransferase
Length = 325
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 31/66 (46%)
Query: 139 RGKRMMFVGDSLNRGQYVSMVCLLHRLIPENAKSMETFDSLTVFTAKDYNATIEFYWAPF 198
R +++ +G + + +H + N S ETF+ + F +Y+ I++Y F
Sbjct: 46 RFPKLLIIGPQKTGTTALYLFLGMHPDLSSNYPSSETFEEIQFFNGHNYHKGIDWYMEFF 105
Query: 199 LLESNS 204
+ SN+
Sbjct: 106 PIPSNT 111
>pdb|2COM|A Chain A, The Solution Structure Of The Swirm Domain Of Human Lsd1
Length = 124
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 187 YNATIEFYWAPFLLESNSDNAVVHRISDRIVRKGSIN 223
+ AT++ AP+ NSD +VHR+ + R G IN
Sbjct: 70 FEATLQQLEAPY----NSDTVLVHRVHSYLERHGLIN 102
>pdb|2XAF|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (+)-Cis-2-Phenylcyclopropyl-1-Amine
pdb|2XAG|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (-)-Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAH|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With (+)-
Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAJ|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
(-)-Trans- 2-Phenylcyclopropyl-1-Amine
pdb|2XAQ|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2584, 13b)
pdb|2XAS|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2580, 14e)
Length = 852
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 187 YNATIEFYWAPFLLESNSDNAVVHRISDRIVRKGSIN 223
+ AT++ AP+ NSD +VHR+ + R G IN
Sbjct: 231 FEATLQQLEAPY----NSDTVLVHRVHSYLERHGLIN 263
>pdb|2X0L|A Chain A, Crystal Structure Of A Neuro-Specific Splicing Variant Of
Human Histone Lysine Demethylase Lsd1
Length = 734
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 187 YNATIEFYWAPFLLESNSDNAVVHRISDRIVRKGSIN 223
+ AT++ AP+ NSD +VHR+ + R G IN
Sbjct: 109 FEATLQQLEAPY----NSDTVLVHRVHSYLERHGLIN 141
>pdb|2V1D|A Chain A, Structural Basis Of Lsd1-Corest Selectivity In Histone H3
Recognition
pdb|2Y48|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A N-
Terminal Snail Peptide
Length = 730
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 187 YNATIEFYWAPFLLESNSDNAVVHRISDRIVRKGSIN 223
+ AT++ AP+ NSD +VHR+ + R G IN
Sbjct: 109 FEATLQQLEAPY----NSDTVLVHRVHSYLERHGLIN 141
>pdb|2IW5|A Chain A, Structural Basis For Corest-dependent Demethylation Of
Nucleosomes By The Human Lsd1 Histone Demethylase
pdb|2UXN|A Chain A, Structural Basis Of Histone Demethylation By Lsd1 Revealed
By Suicide Inactivation
pdb|2UXX|A Chain A, Human Lsd1 Histone Demethylase-Corest In Complex With An
Fad-Tranylcypromine Adduct
Length = 666
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 187 YNATIEFYWAPFLLESNSDNAVVHRISDRIVRKGSIN 223
+ AT++ AP+ NSD +VHR+ + R G IN
Sbjct: 61 FEATLQQLEAPY----NSDTVLVHRVHSYLERHGLIN 93
>pdb|1L1L|A Chain A, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|B Chain B, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|C Chain C, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|D Chain D, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
Length = 739
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 43/102 (42%), Gaps = 10/102 (9%)
Query: 242 WWMTGLKMKILKG---SFDDEEKEIVEIPTEDAYRMAMKSML--RWVKLNMDRKKT---- 292
W +T L +++ G FD E E +++P D + M L VK + D KT
Sbjct: 480 WLLTRLGNRVVTGFKDDFDPETHEAIKVPVYDKRAIKMVDQLYKAVVKADQDYSKTLGCN 539
Query: 293 -RVFFTSMSPSHGKSIDWGGEPGKNCYNETTLIEDPNYWGSD 333
+ T++ PS + G G + + LI+ + SD
Sbjct: 540 ESIKHTTVKPSGTVAKLAGASEGMHFHYGAYLIQRIRFQDSD 581
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
0.322 0.138 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,241,713
Number of Sequences: 62578
Number of extensions: 565673
Number of successful extensions: 1234
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: 1232
Number of HSP's gapped (non-prelim): 11
length of query: 417
length of database: 14,973,337
effective HSP length: 101
effective length of query: 316
effective length of database: 8,652,959
effective search space: 2734335044
effective search space used: 2734335044
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)