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= 010177
(516 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DDP|A Chain A, Crystal Structure Of Beclin 1 Evolutionarily Conserved
Domain(Ecd)
Length = 210
Score = 169 bits (429), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 87/207 (42%), Positives = 120/207 (57%), Gaps = 22/207 (10%)
Query: 280 EERDAISSKIEVSQAHLELLKRTNVLNDAFPIWHDGEFGTINNFRLGRLPKIPVEWDEIN 339
+E ++ +++ +Q L+ LK+TNV N F IWH G+FGTINNFRLGRLP +PVEW+EIN
Sbjct: 5 DELKSVENQMRYAQTQLDKLKKTNVFNATFHIWHSGQFGTINNFRLGRLPSVPVEWNEIN 64
Query: 340 AAWGQACLLLHTMCQYFRPKFPYRIKIIPMGSYPRIMDSNNNTYEL----FGPVNLFWST 395
AAWGQ LLLH + KF R +++P G++ + + + EL G + FW
Sbjct: 65 AAWGQTVLLLHALANKMGLKFQ-RYRLVPYGNHSYLESLTDKSKELPLYCSGGLRFFWDN 123
Query: 396 RYDKAMTLFLSCLKDFAEFANSKDQENNIPPDKCFKLPYK--IENDKVEN-------YSI 446
++D AM FL C++ F E + F LPY+ +E K+E+ YSI
Sbjct: 124 KFDHAMVAFLDCVQQFKEEVEKGETR--------FCLPYRMDVEKGKIEDTGGSGGSYSI 175
Query: 447 TQSFNKQENWTKALKYTLCNLKWALFW 473
FN +E WTKALK+ L NLKW L W
Sbjct: 176 KTQFNSEEQWTKALKFMLTNLKWGLAW 202
>pdb|3VP7|A Chain A, Crystal Structure Of The Beta-Alpha Repeated,
Autophagy-Specific (Bara) Domain Of Vps30ATG6
Length = 220
Score = 79.7 bits (195), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 64/215 (29%), Positives = 95/215 (44%), Gaps = 51/215 (23%)
Query: 303 NVLNDAFPIWHDGEFGTINNFRLGRLPKIPVEWDEINAAWGQACLLLHTMCQYFRPKF-P 361
N+ N F I H G F TIN RLG +P+ V W EINAA GQ LLL T+ + +
Sbjct: 2 NIFNATFKISHSGPFATINGLRLGSIPESVVPWKEINAALGQLILLLATINKNLKINLVD 61
Query: 362 YRIKIIPMGSYPRI-------MDSNNNTYE-----LFGPV---------NLFWS-TRYDK 399
Y ++ PMGS+ +I ++ NN+T L PV +F T++DK
Sbjct: 62 YELQ--PMGSFSKIKKRMVNSVEYNNSTTNAPGDWLILPVYYDENFNLGRIFRKETKFDK 119
Query: 400 AMTLFLSCL----------------------KDFAEFANSKDQENNIPPDKCFKLPYKIE 437
++ L + +D + N+ D EN+ +LPY +
Sbjct: 120 SLETTLEIISEITRQLSTIASSYSSQTLTTSQDESSMNNANDVENS---TSILELPYIMN 176
Query: 438 NDKVENYSI-TQSFNKQENWTKALKYTLCNLKWAL 471
DK+ S+ + WT A+K+ L N+KW L
Sbjct: 177 KDKINGLSVKLHGSSPNLEWTTAMKFLLTNVKWLL 211
>pdb|1W0E|A Chain A, Crystal Structure Of Human Cytochrome P450 3a4
pdb|1W0F|A Chain A, Crystal Structure Of Human Cytochrome P450 3a4
pdb|1W0G|A Chain A, Crystal Structure Of Human Cytochrome P450 3a4
pdb|2J0D|A Chain A, Crystal Structure Of Human P450 3a4 In Complex With
Erythromycin
pdb|2J0D|B Chain B, Crystal Structure Of Human P450 3a4 In Complex With
Erythromycin
pdb|2V0M|A Chain A, Crystal Structure Of Human P450 3a4 In Complex With
Ketoconazole
pdb|2V0M|B Chain B, Crystal Structure Of Human P450 3a4 In Complex With
Ketoconazole
pdb|2V0M|C Chain C, Crystal Structure Of Human P450 3a4 In Complex With
Ketoconazole
pdb|2V0M|D Chain D, Crystal Structure Of Human P450 3a4 In Complex With
Ketoconazole
pdb|3NXU|A Chain A, Crystal Structure Of Human Cytochrome P4503a4 Bound To An
Inhibitor Ritonavir
pdb|3NXU|B Chain B, Crystal Structure Of Human Cytochrome P4503a4 Bound To An
Inhibitor Ritonavir
Length = 485
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 435 KIENDKVENYSITQSFNKQENWTKALKYTLCNLKWALFWFVGNTNFQPVSAMSSPAEVSA 494
K D ++ Y I F +++ L N+K AL + N +F+P P ++S
Sbjct: 399 KKNKDNIDPY-IYTPFGSGPRNCIGMRFALMNMKLALIRVLQNFSFKPCKETQIPLKLSL 457
Query: 495 VGSLYAKRGADLKSVGRN 512
G L ++ LK R+
Sbjct: 458 GGLLQPEKPVVLKVESRD 475
>pdb|1TQN|A Chain A, Crystal Structure Of Human Microsomal P450 3a4
Length = 486
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 435 KIENDKVENYSITQSFNKQENWTKALKYTLCNLKWALFWFVGNTNFQPVSAMSSPAEVSA 494
K D ++ Y I F +++ L N+K AL + N +F+P P ++S
Sbjct: 400 KKNKDNIDPY-IYTPFGSGPRNCIGMRFALMNMKLALIRVLQNFSFKPCKETQIPLKLSL 458
Query: 495 VGSLYAKRGADLKSVGRN 512
G L ++ LK R+
Sbjct: 459 GGLLQPEKPVVLKVESRD 476
>pdb|3UA1|A Chain A, Crystal Structure Of The Cytochrome
P4503a4-Bromoergocryptine Complex
pdb|3TJS|A Chain A, Crystal Structure Of The Complex Between Human Cytochrome
P450 3a4 And Desthiazolylmethyloxycarbonyl Ritonavir
Length = 487
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 435 KIENDKVENYSITQSFNKQENWTKALKYTLCNLKWALFWFVGNTNFQPVSAMSSPAEVSA 494
K D ++ Y I F +++ L N+K AL + N +F+P P ++S
Sbjct: 401 KKNKDNIDPY-IYTPFGSGPRNCIGMRFALMNMKLALIRVLQNFSFKPCKETQIPLKLSL 459
Query: 495 VGSLYAKRGADLKSVGRN 512
G L ++ LK R+
Sbjct: 460 GGLLQPEKPVVLKVESRD 477
>pdb|4DZO|A Chain A, Structure Of Human Mad1 C-Terminal Domain Reveals Its
Involvement In Kinetochore Targeting
pdb|4DZO|B Chain B, Structure Of Human Mad1 C-Terminal Domain Reveals Its
Involvement In Kinetochore Targeting
Length = 123
Score = 29.6 bits (65), Expect = 4.7, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 25/42 (59%)
Query: 238 KQNAEVNAELKELELKSKRFKELEERYWQEFNNFQFQLIAHQ 279
K+ AE+ +++ ELK++R KE+ + QEF + L +Q
Sbjct: 4 KEVAELKKQVESAELKNQRLKEVFQTKIQEFRKACYTLTGYQ 45
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 0.133 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,375,258
Number of Sequences: 62578
Number of extensions: 564546
Number of successful extensions: 1050
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1043
Number of HSP's gapped (non-prelim): 8
length of query: 516
length of database: 14,973,337
effective HSP length: 103
effective length of query: 413
effective length of database: 8,527,803
effective search space: 3521982639
effective search space used: 3521982639
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: 54 (25.4 bits)