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= 043655
(512 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JNK|A Chain A, The C-Jun N-Terminal Kinase (Jnk3s) Complexed With
Mgamp-Pnp
Length = 423
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 55/122 (45%), Gaps = 13/122 (10%)
Query: 265 LRVASC--FDAYCDKSWVK--IDASKLKVLNWEYNAITASSSL------ENLASLHEASV 314
+++A C FD D S++ + SK KV N Y+ S+ +NL + +
Sbjct: 16 VKIAFCQGFDKQVDVSYIAKHYNMSKSKVDNQFYSVEVGDSTFTVLKRYQNLKPIGSGAQ 75
Query: 315 GFILLHEDLT---SAKLQSVSNFLSGLSHARSLTLESPCIEILSNRNYFTNLHTFTNLKS 371
G + D + ++ +S +HA+ E ++ ++++N + L+ FT K+
Sbjct: 76 GIVCAAYDAVLDRNVAIKKLSRPFQNQTHAKRAYRELVLMKCVNHKNIISLLNVFTPQKT 135
Query: 372 LE 373
LE
Sbjct: 136 LE 137
>pdb|3S5P|A Chain A, Crystal Structure Of Ribose-5-Phosphate Isomerase B Rpib
From Giardia Lamblia
pdb|3S5P|B Chain B, Crystal Structure Of Ribose-5-Phosphate Isomerase B Rpib
From Giardia Lamblia
Length = 166
Score = 29.6 bits (65), Expect = 3.7, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 235 KVGCRALEDLTLDNCIQLC----GLDIFGTKLERLRVASCFDAY 274
K+GC A+ D CI +C G+ I K++ +R A C Y
Sbjct: 68 KIGCEAVTSGRADCCILVCGTGIGISIAANKMKGIRCALCSTEY 111
>pdb|3TTJ|A Chain A, Crystal Structure Of Jnk3 Complexed With Cc-359, A Jnk
Inhibitor For The Prevention Of Ischemia-Reperfusion
Injury
pdb|3TTI|A Chain A, Crystal Structure Of Jnk3 Complexed With Cc-930, An Orally
Active Anti-Fibrotic Jnk Inhibitor
Length = 464
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 55/122 (45%), Gaps = 13/122 (10%)
Query: 265 LRVASC--FDAYCDKSWVK--IDASKLKVLNWEYNAITASSSL------ENLASLHEASV 314
+++A C FD D S++ + SK KV N Y+ S+ +NL + +
Sbjct: 16 VKIAFCQGFDKQVDVSYIAKHYNMSKSKVDNQFYSVEVGDSTFTVLKRYQNLKPIGSGAQ 75
Query: 315 GFILLHEDLT---SAKLQSVSNFLSGLSHARSLTLESPCIEILSNRNYFTNLHTFTNLKS 371
G + D + ++ +S +HA+ E ++ ++++N + L+ FT K+
Sbjct: 76 GIVCAAYDAVLDRNVAIKKLSRPFQNQTHAKRAYRELVLMKCVNHKNIISLLNVFTPQKT 135
Query: 372 LE 373
LE
Sbjct: 136 LE 137
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 33/115 (28%), Positives = 44/115 (38%), Gaps = 20/115 (17%)
Query: 268 ASCFDAYCDKSWVKIDASKLKVLNWEYNAITASSSLENLASLHEASVGFILLHEDLTSAK 327
+ F+ C+ S I+ K N N S L+ L DLT+
Sbjct: 245 PAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQEL---------------DLTATH 289
Query: 328 LQSVSNFLSGLSHARSLTL-----ESPCIEILSNRNYFTNLHTFTNLKSLELHTG 377
L + + L GLS + L L E+ C SN T+L N K LEL TG
Sbjct: 290 LSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTG 344
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 40/81 (49%), Gaps = 14/81 (17%)
Query: 231 LKQLKVGCRALEDLT-LDNCIQLCGLDIFGTKLERLRVASCFDAYCDKSWVKIDASKLKV 289
L LK+G + DL+ L N QL L+I GT + D + VK D +KLK
Sbjct: 223 LNSLKIGNNKITDLSPLANLSQLTWLEI-GT-----------NQISDINAVK-DLTKLKX 269
Query: 290 LNWEYNAITASSSLENLASLH 310
LN N I+ S L NL+ L+
Sbjct: 270 LNVGSNQISDISVLNNLSQLN 290
>pdb|3L4H|A Chain A, Helical Box Domain And Second Ww Domain Of The Human E3
Ubiq Protein Ligase Hecw1
Length = 109
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 18/76 (23%)
Query: 344 LTLESPCIEILSNRNYFTNLHTFTNLKSLELHTGFNKHNVQGLACLFRSSPSIHTLILKI 403
L L+SP ++ ++N +FT LH ++ + V F SS + ILK+
Sbjct: 1 LLLQSPAVKFITNPEFFT-----------VLHANYSAYRV------FTSSTCLKHXILKV 43
Query: 404 INDYK-IQRRQWNRDL 418
D + +R Q NRDL
Sbjct: 44 RRDARNFERYQHNRDL 59
>pdb|3VQI|A Chain A, Crystal Structure Of Kluyveromyces Marxianus Atg5
pdb|3VQI|B Chain B, Crystal Structure Of Kluyveromyces Marxianus Atg5
pdb|3VQI|C Chain C, Crystal Structure Of Kluyveromyces Marxianus Atg5
pdb|3VQI|D Chain D, Crystal Structure Of Kluyveromyces Marxianus Atg5
pdb|3VQI|E Chain E, Crystal Structure Of Kluyveromyces Marxianus Atg5
Length = 274
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 143 LDIEVATDDYFNLPRCVITSDSLRVFKLRSRYRGFRLP 180
+++EV D +P + S + LR Y GF LP
Sbjct: 16 INVEVVVSDAIVVPNTTLADKSCHIVMLRDAYLGFYLP 53
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 0.137 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,977,027
Number of Sequences: 62578
Number of extensions: 524940
Number of successful extensions: 1352
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1347
Number of HSP's gapped (non-prelim): 18
length of query: 512
length of database: 14,973,337
effective HSP length: 103
effective length of query: 409
effective length of database: 8,527,803
effective search space: 3487871427
effective search space used: 3487871427
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)