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= 033999
(106 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NVP|D Chain D, Human TfiiaTBPDNA COMPLEX
Length = 108
Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 51/99 (51%), Positives = 75/99 (75%)
Query: 4 FELYRRSTIGMCLTETLDEMVQNGTLTPELAIQVLVQFDKSMTEALETQVKSKVSIKGHL 63
++LYR +T+G L E+LDE++Q+ +TP+LA+QVL+QFDK++ AL +V+++V+ +G L
Sbjct: 2 YQLYRNTTLGNSLQESLDELIQSQQITPQLALQVLLQFDKAINAALAQRVRNRVNFRGSL 61
Query: 64 HTYRFCDNVWTFILQDALFKSEELQETVGRVKIVACDSK 102
+TYRFCDNVWTF+L D F+ V +VKIVACD K
Sbjct: 62 NTYRFCDNVWTFVLNDVEFREVTELIKVDKVKIVACDGK 100
>pdb|1YTF|D Chain D, Yeast TfiiaTBPDNA COMPLEX
pdb|1NH2|D Chain D, Crystal Structure Of A Yeast TfiiaTBPDNA COMPLEX
Length = 121
Score = 92.4 bits (228), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 45/113 (39%), Positives = 70/113 (61%), Gaps = 14/113 (12%)
Query: 4 FELYRRSTIGMCLTETLDEMVQNGTLTPELAIQVLVQFDKSMTEALETQVKSKVSIKGHL 63
+ELYRRSTIG L + LD ++ +G + LA++VL FDK + E L+ +SK+++KG+L
Sbjct: 6 YELYRRSTIGNSLVDALDTLISDGRIEASLAMRVLETFDKVVAETLKDNTQSKLTVKGNL 65
Query: 64 HTYRFCDNVWTFILQDALFKSEELQE--------------TVGRVKIVACDSK 102
TY FCD+VWTFI+++ E+ +V +++IVAC+SK
Sbjct: 66 DTYGFCDDVWTFIVKNCQVTVEDSHRDASQNGSGDSQSVISVDKLRIVACNSK 118
>pdb|1RM1|B Chain B, Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex
Length = 122
Score = 92.4 bits (228), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 45/113 (39%), Positives = 70/113 (61%), Gaps = 14/113 (12%)
Query: 4 FELYRRSTIGMCLTETLDEMVQNGTLTPELAIQVLVQFDKSMTEALETQVKSKVSIKGHL 63
+ELYRRSTIG L + LD ++ +G + LA++VL FDK + E L+ +SK+++KG+L
Sbjct: 7 YELYRRSTIGNSLVDALDTLISDGRIEASLAMRVLETFDKVVAETLKDNTQSKLTVKGNL 66
Query: 64 HTYRFCDNVWTFILQDALFKSEELQE--------------TVGRVKIVACDSK 102
TY FCD+VWTFI+++ E+ +V +++IVAC+SK
Sbjct: 67 DTYGFCDDVWTFIVKNCQVTVEDSHRDASQNGSGDSQSVISVDKLRIVACNSK 119
>pdb|2Y4O|A Chain A, Crystal Structure Of Paak2 In Complex With Phenylacetyl
Adenylate
pdb|2Y4O|B Chain B, Crystal Structure Of Paak2 In Complex With Phenylacetyl
Adenylate
Length = 443
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 25/40 (62%)
Query: 20 LDEMVQNGTLTPELAIQVLVQFDKSMTEALETQVKSKVSI 59
+DEMV+ G E ++++ + + T+AL +V+++V I
Sbjct: 199 IDEMVRQGMDPAESSLKIGIFGAEPWTQALRNEVETRVGI 238
>pdb|3OWA|A Chain A, Crystal Structure Of Acyl-Coa Dehydrogenase Complexed With
Fad From Bacillus Anthracis
pdb|3OWA|B Chain B, Crystal Structure Of Acyl-Coa Dehydrogenase Complexed With
Fad From Bacillus Anthracis
pdb|3OWA|C Chain C, Crystal Structure Of Acyl-Coa Dehydrogenase Complexed With
Fad From Bacillus Anthracis
pdb|3OWA|D Chain D, Crystal Structure Of Acyl-Coa Dehydrogenase Complexed With
Fad From Bacillus Anthracis
Length = 597
Score = 26.2 bits (56), Expect = 5.0, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 69 CDNVWTFILQDALFKSEELQETVGRVKIVA 98
C + T IL+DAL E L +G+ I+A
Sbjct: 232 CSSTRTLILEDALVPKENLLGEIGKGHIIA 261
>pdb|1I7L|A Chain A, Crystal Structure Analysis Of The Complex Of The C Domain
Of Synapsin Ii From Rat With Atp
pdb|1I7L|B Chain B, Crystal Structure Analysis Of The Complex Of The C Domain
Of Synapsin Ii From Rat With Atp
pdb|1I7N|A Chain A, Crystal Structure Analysis Of The C Domain Of Synapsin Ii
From Rat Brain
pdb|1I7N|B Chain B, Crystal Structure Analysis Of The C Domain Of Synapsin Ii
From Rat Brain
Length = 309
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 66 YRFCDNVWTFILQDALFKS 84
Y FCD W F A+FK+
Sbjct: 109 YNFCDKPWVFAQMVAIFKT 127
>pdb|1Z1N|X Chain X, Crystal Structure Of The Sixteen Heme Cytochrome From
Desulfovibrio Gigas
Length = 560
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 24 VQNGTLTPELAIQVLVQFDKSMTEALETQVKSKVSIKGHLHTY 66
V+ T+TP+ ++ + + + EA QVK S K HTY
Sbjct: 143 VEGATVTPKPSLDLNLHGRHVVAEAKRLQVKEDESCKACHHTY 185
>pdb|3BZC|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form I
pdb|3BZK|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form 2
Length = 785
Score = 25.4 bits (54), Expect = 9.0, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 20 LDEMVQNGTLTPELAIQVLVQFDKSMTEALETQVKSKVSIKGHL 63
L + + G LTPELA + + K+ E L K K KG +
Sbjct: 78 LASIEEQGKLTPELARDIKLADTKTRLEDLYLPYKQKRRTKGQI 121
>pdb|2OCE|A Chain A, Crystal Structure Of Tex Family Protein Pa5201 From
Pseudomonas Aeruginosa
Length = 780
Score = 25.4 bits (54), Expect = 9.3, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 20 LDEMVQNGTLTPELAIQVLVQFDKSMTEALETQVKSKVSIKGHL 63
L + + G LTPELA + + K+ E L K K KG +
Sbjct: 79 LASIEEQGKLTPELARDIKLADTKTRLEDLYLPYKQKRRTKGQI 122
>pdb|2C20|A Chain A, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|B Chain B, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|C Chain C, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|D Chain D, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|E Chain E, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|F Chain F, Crystal Structure Of Udp-Glucose 4-Epimerase
Length = 330
Score = 25.0 bits (53), Expect = 9.7, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 4 FELYRRSTIG-MCLTETLDEM-----VQNGTLTPELAIQVLVQFDKSMTEALETQVKSKV 57
+ Y + G +CL E +DE + + T + V + +++MT T ++K+
Sbjct: 88 LQYYNNNVYGALCLLEVMDEFKVDKFIFSSTAATYGEVDVDLITEETMTNPTNTYGETKL 147
Query: 58 SIKGHLHTYRFCDNV 72
+I+ LH Y N+
Sbjct: 148 AIEKMLHWYSQASNL 162
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
0.321 0.132 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,642,621
Number of Sequences: 62578
Number of extensions: 78866
Number of successful extensions: 175
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 163
Number of HSP's gapped (non-prelim): 13
length of query: 106
length of database: 14,973,337
effective HSP length: 71
effective length of query: 35
effective length of database: 10,530,299
effective search space: 368560465
effective search space used: 368560465
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: 45 (21.9 bits)