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= 040662
(365 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZOO|A Chain A, Crystal Structure Of Nitrite Reductase From
Pseudoalteromonas Haloplanktis Tac125
Length = 442
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 6/90 (6%)
Query: 222 SQNLEILPYPPSILFMYKYLTEYDGSLLIFGKVVDGSGYRVFTFNRSQMDWFEIESLDDR 281
+ N++ P + ++ E G+ ++ VD S +R F N+ + ++E DD
Sbjct: 248 NHNVQTTLIPAGGAAIVEFKVEVPGTFIL----VDHSIFRAF--NKGALAMLKVEGPDDH 301
Query: 282 VLFTGASCLWVPVEKGSAFANTVHWFGRYS 311
+FTG + V + +GSA + + F + +
Sbjct: 302 SIFTGKTAENVYLPEGSAIQSLDNTFTKIT 331
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A
P27 Peptide
Length = 336
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 16 SWSDLPLEIINSIVSRLYVVYQIRFRAVCKRW-RAADIQSRDKFPWLMGYNSH 67
SW LP E++ I S L + ++ VCKRW R A +S + L G N H
Sbjct: 8 SWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTGKNLH 60
>pdb|3K28|A Chain A, Crystal Structure Of A Glutamate-1-Semialdehyde
Aminotransferase From Bacillus Anthracis With Bound
Pyridoxal 5'phosphate
pdb|3K28|B Chain B, Crystal Structure Of A Glutamate-1-Semialdehyde
Aminotransferase From Bacillus Anthracis With Bound
Pyridoxal 5'phosphate
pdb|3K28|C Chain C, Crystal Structure Of A Glutamate-1-Semialdehyde
Aminotransferase From Bacillus Anthracis With Bound
Pyridoxal 5'phosphate
pdb|3K28|D Chain D, Crystal Structure Of A Glutamate-1-Semialdehyde
Aminotransferase From Bacillus Anthracis With Bound
Pyridoxal 5'phosphate
Length = 429
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 2/41 (4%)
Query: 222 SQNLEILPYPPSILFMYKYLTEYDGSLLIFGKVVDGSGYRV 262
+ N ++P P L + +TE +G+LLIF +V +G+RV
Sbjct: 210 AGNXGVVPPQPGFLEGLREVTEQNGALLIFDEVX--TGFRV 248
>pdb|1FS1|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FS1|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
Length = 53
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 16 SWSDLPLEIINSIVSRLYVVYQIRFRAVCKRW 47
SW LP E++ I S L + ++ VCKRW
Sbjct: 8 SWDSLPDELLLGIFSCLCLPELLKVSGVCKRW 39
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
Length = 272
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 16 SWSDLPLEIINSIVSRLYVVYQIRFRAVCKRW 47
SW LP E++ I S L + ++ VCKRW
Sbjct: 8 SWDSLPDELLLGIFSCLCLPELLKVSGVCKRW 39
>pdb|1NI3|A Chain A, Structure Of The Schizosaccharomyces Pombe Ychf Gtpase
Length = 392
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 5 IKEKKQKLERGSWSDLPLEIINSI 28
+ E KQ + +G WS+ +EIINS+
Sbjct: 196 LTETKQPIRKGDWSNREVEIINSL 219
>pdb|1EDG|A Chain A, Single Crystal Structure Determination Of The Catalytic
Domain Of Celcca Carried Out At 15 Degree C
Length = 380
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 28/72 (38%), Gaps = 3/72 (4%)
Query: 291 WVPVEKGSAFANTVHWFGRYSYIRDVC---REFIRKPVESDSSKVAPRVRGYEYSKEEEE 347
W P GS + + W R + + C + ++ D KV +Y ++
Sbjct: 84 WHPHVSGSDYKISDVWMNRVQEVVNYCIDNKMYVILNTHHDVDKVKGYFPSSQYMASSKK 143
Query: 348 YMTQIWIQPPVR 359
Y+T +W Q R
Sbjct: 144 YITSVWAQIAAR 155
>pdb|3M8U|A Chain A, Crystal Structure Of Glutathione-Binding Protein A (Gbpa)
From Haemophilus Parasuis Sh0165 In Complex With
Glutathione Disulfide (Gssg)
Length = 522
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 11/38 (28%)
Query: 335 RVRGYEYSKE-----------EEEYMTQIWIQPPVRRS 361
+ GYEYS E E + T IW+QP VR S
Sbjct: 322 EITGYEYSPEKAKQLLKEAGFENGFETDIWVQPVVRAS 359
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 0.139 0.448
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,659,366
Number of Sequences: 62578
Number of extensions: 485615
Number of successful extensions: 844
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 839
Number of HSP's gapped (non-prelim): 10
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)