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= 042701
(1075 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EG9|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
MEMBRIN
pdb|3EGD|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22 AND
BOUND To The Transport Signal Sequence Of Vesicular
Stomatitis Virus Glycoprotein
pdb|3EGX|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22B AND
Bound To The Transport Signal Sequence Of The Snare
Protein Bet1
Length = 764
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 645 ADSLEQYIISLITSTCEEETAAVYCRKLMPYQIESISGTLVLRWINSQLGRI 696
AD+ Q I I ++ ++E AA+ +L Y+ E+ G VLRW++ QL R+
Sbjct: 504 ADAQTQ--IQNIAASFDQEAAAILMARLAIYRAETEEGPDVLRWLDRQLIRL 553
>pdb|2NUP|A Chain A, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|A Chain A, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 769
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 645 ADSLEQYIISLITSTCEEETAAVYCRKLMPYQIESISGTLVLRWINSQLGRI 696
AD+ Q I I ++ ++E AA+ +L Y+ E+ G VLRW++ QL R+
Sbjct: 508 ADAQTQ--IQNIAASFDQEAAAILMARLAIYRAETEEGPDVLRWLDRQLIRL 557
>pdb|3EFO|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
SYNTAXIN 5
Length = 765
Score = 32.7 bits (73), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 645 ADSLEQYIISLITSTCEEETAAVYCRKLMPYQIESISGTLVLRWINSQLGRI 696
AD+ Q I I ++ ++E AA+ +L Y+ E+ G VLRW++ QL R+
Sbjct: 504 ADAQTQ--IQNIAASFDQEAAAILMARLAIYRAETEEGPDVLRWLDRQLIRL 553
>pdb|2XIG|A Chain A, The Structure Of The Helicobacter Pylori Ferric Uptake
Regulator Fur Reveals Three Functional Metal Binding
Sites
pdb|2XIG|B Chain B, The Structure Of The Helicobacter Pylori Ferric Uptake
Regulator Fur Reveals Three Functional Metal Binding
Sites
pdb|2XIG|C Chain C, The Structure Of The Helicobacter Pylori Ferric Uptake
Regulator Fur Reveals Three Functional Metal Binding
Sites
pdb|2XIG|D Chain D, The Structure Of The Helicobacter Pylori Ferric Uptake
Regulator Fur Reveals Three Functional Metal Binding
Sites
Length = 150
Score = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 50/97 (51%), Gaps = 11/97 (11%)
Query: 251 QRAPGLVGLLETMRVQMEISEAMDIRTRQGLLNALTGKVGKRMDTLLIPLELLCCISRTE 310
+R L +LE +R+ ++ + + + R+ +++ L R T L P E+ I +
Sbjct: 2 KRLETLESILERLRMSIKKNGLKNSKQREEVVSVLY-----RSGTHLSPEEITHSIRQ-- 54
Query: 311 FSDKNTSLVENWMVLNMLE-EGLINHPVVGFGESGRR 346
DKNTS+ + +LN LE E I+ V+ +SGRR
Sbjct: 55 -KDKNTSISSVYRILNFLEKENFIS--VLETSKSGRR 88
>pdb|4B63|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida) Bound To Nadp
And Ornithine
pdb|4B64|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida) Bound To Nadp
And Lysine
pdb|4B65|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida), Reduced State
Bound To Nadp(H)
pdb|4B66|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida), Reduced State
Bound To Nadp And Arg
pdb|4B67|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida), Re-Oxidised
State Bound To Nadp And Ornithine
pdb|4B68|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida), Re-Oxidised
State Bound To Nadp And Arg
pdb|4B69|A Chain A, A. Fumigatus Ornithine Hydroxylase (Sida) Bound To
Ornithine
Length = 501
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 462 LFRQYVITSEQGMLQHAIDQLKKIPLKEQRGPQERL--HLKSLLSKVEVEGGS 512
++ Q V ++ QH I +KI E GPQ R+ HLKS SK E EG +
Sbjct: 339 MYLQRVKNPDETQWQHRILPERKITRVEHHGPQSRMRIHLKS--SKPESEGAA 389
>pdb|3PF2|A Chain A, The Crystal Structure Of The Major Pilin Gbs80 Of
Streptococcus Agalactiae 35kda C-Terminal Fragment
pdb|3PG2|A Chain A, The Crystal Structure Of The Major Pilin Gbs80 Of
Streptococcus Agalactiae 35 Kda C-Terminal Fragment
pdb|3PG2|B Chain B, The Crystal Structure Of The Major Pilin Gbs80 Of
Streptococcus Agalactiae 35 Kda C-Terminal Fragment
Length = 319
Score = 30.4 bits (67), Expect = 5.4, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 9/89 (10%)
Query: 739 LQVPMRST--ELNALFRGIDNAFQVYANHVTDKLGSKEDLVPPEPVLTRYRKEAGIKAFV 796
L++P+ ST E L + I+N F++ +H DK + + PP + G K FV
Sbjct: 132 LEIPVASTINEKAVLGKAIENTFELQYDHTPDKADNPKPSNPPR----KPEVHTGGKRFV 187
Query: 797 KKEILDPRMSEERRSSEINILTTAALCVQ 825
KK D ++ +E ++L + V+
Sbjct: 188 KK---DSTETQTLGGAEFDLLASDGTAVK 213
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
0.318 0.135 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,860,784
Number of Sequences: 62578
Number of extensions: 953054
Number of successful extensions: 2131
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2123
Number of HSP's gapped (non-prelim): 12
length of query: 1075
length of database: 14,973,337
effective HSP length: 109
effective length of query: 966
effective length of database: 8,152,335
effective search space: 7875155610
effective search space used: 7875155610
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: 57 (26.6 bits)