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= 020824
(321 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PY6|A Chain A, Crystal Structure Of Methyltransferase Fkbm (Yp_546752.1)
From Methylobacillus Flagellatus Kt At 2.20 A Resolution
Length = 409
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 42/165 (25%), Positives = 65/165 (39%), Gaps = 25/165 (15%)
Query: 138 VDVGANVG--MASFAAAVMG--FRVLSFEPVFENLQ-------RICDGVWFNRVGDLVTV 186
VD GA++G +A G RV EP NLQ R D + +R+ TV
Sbjct: 231 VDCGASIGESLAGLIGVTKGKFERVWXIEPDRINLQTLQNVLRRYTDTNFASRI----TV 286
Query: 187 YEAAVSDRIGNITFHKLVGRLDNSAVSATGAKLAFKSNEEIALQVRSIPLDEVIPEAEPV 246
+ + + F N G ++ E A + P+D++I +A
Sbjct: 287 HGCGAGENTIRVPF--------NHEGGHGGFVKPADADHEPADLIDVRPIDDIIDDAP-- 336
Query: 247 LLLKIDVQGWEYHVLKGATKLLSRKKGESPYLIYEEDEHLLQASN 291
+K D++G E LKGA + +S K + Y LL +N
Sbjct: 337 TFIKXDIEGSELSALKGARRAISEHKPKLAISAYHRSTDLLDLTN 381
>pdb|2E18|A Chain A, Crystal Structure Of Project Ph0182 From Pyrococcus
Horikoshii Ot3
pdb|2E18|B Chain B, Crystal Structure Of Project Ph0182 From Pyrococcus
Horikoshii Ot3
Length = 257
Score = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 112 FRKPDISVTIQEILEKMKKEGKNGLVVDVGANVGMASFA----AAVMGFRVLSF-EPVFE 166
R D I+ ILE ++++G NG+V+ + V A+ A A+ +VL P FE
Sbjct: 1 MRILDYDKVIERILEFIREKGNNGVVIGISGGVDSATVAYLATKALGKEKVLGLIMPYFE 60
Query: 167 N 167
N
Sbjct: 61 N 61
>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 = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 243 AEPVLLLKIDVQGWEYHVLKGATKLLSRKKGESPYLIYEEDEHLLQASNSSAKEIREFLH 302
A+ +LL+ Q YH G T RK G YE HLLQA A+EI LH
Sbjct: 644 ADRILLMDTFFQILIYH---GETIAQWRKSGYQDMPEYENFRHLLQAPVDDAQEI---LH 697
Query: 303 S 303
S
Sbjct: 698 S 698
>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 = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 243 AEPVLLLKIDVQGWEYHVLKGATKLLSRKKGESPYLIYEEDEHLLQASNSSAKEIREFLH 302
A+ +LL+ Q YH G T RK G YE HLLQA A+EI LH
Sbjct: 648 ADRILLMDTFFQILIYH---GETIAQWRKSGYQDMPEYENFRHLLQAPVDDAQEI---LH 701
Query: 303 S 303
S
Sbjct: 702 S 702
>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 = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 243 AEPVLLLKIDVQGWEYHVLKGATKLLSRKKGESPYLIYEEDEHLLQASNSSAKEIREFLH 302
A+ +LL+ Q YH G T RK G YE HLLQA A+EI LH
Sbjct: 644 ADRILLMDTFFQILIYH---GETIAQWRKSGYQDMPEYENFRHLLQAPVDDAQEI---LH 697
Query: 303 S 303
S
Sbjct: 698 S 698
>pdb|3I6D|A Chain A, Crystal Structure Of Ppo From Bacillus Subtilis With Af
pdb|3I6D|B Chain B, Crystal Structure Of Ppo From Bacillus Subtilis With Af
Length = 470
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 46/92 (50%), Gaps = 7/92 (7%)
Query: 215 TGAKLAFKSNEEIALQVRSIPLDEVIPEAEPVLLLKID-VQGWEYHVLKGATKLLSRKKG 273
TG AF +EI + +++PL+ + EA P + KI V+ Y + +G L RKK
Sbjct: 16 TGLAAAFYMEKEI--KEKNLPLELTLVEASPRVGGKIQTVKKDGYIIERGPDSFLERKK- 72
Query: 274 ESPYLIYEED-EHLL--QASNSSAKEIREFLH 302
+P L+ + EHLL A+ S + LH
Sbjct: 73 SAPQLVKDLGLEHLLVNNATGQSYVLVNRTLH 104
>pdb|1X9N|A Chain A, Crystal Structure Of Human Dna Ligase I Bound To
5'-Adenylated, Nicked Dna
Length = 688
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 127 KMKKEGKNGL-----VVDVGANVGMASFAAAVMGFRVLSFEPVFENLQRIC 172
K+KK+ +G+ +V +GA +G A GF + S++ E LQ IC
Sbjct: 513 KLKKDYLDGVGDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAIC 563
>pdb|1RXK|A Chain A, Crystal Structure Of Streptavidin Mutant (M3) A
Combination Of M1+m2
pdb|1RXK|B Chain B, Crystal Structure Of Streptavidin Mutant (M3) A
Combination Of M1+m2
Length = 125
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 16/67 (23%)
Query: 174 GVWFNRVGD-----------LVTVYEAAVSDRIGNITFHKLVGRLDNS-----AVSATGA 217
G W+N++G L YE+AV+ I + L GR D++ + +A G
Sbjct: 6 GTWYNQLGSTFIVTAGADGALTGTYESAVTATSNEIKRYVLTGRYDSAPATDGSGTALGW 65
Query: 218 KLAFKSN 224
+A+K+N
Sbjct: 66 TVAWKNN 72
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 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,837,338
Number of Sequences: 62578
Number of extensions: 338163
Number of successful extensions: 1113
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1111
Number of HSP's gapped (non-prelim): 14
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
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: 51 (24.3 bits)