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= 006630
(638 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 46/97 (47%), Gaps = 10/97 (10%)
Query: 242 SLRHFTSLLYGWCKEGKLVEAKYVLVQMKDAGFEPDIVVYNNLLSGYAQMGKMTDAFE-L 300
+L + +++ GW ++G E YVL +KDAG PD++ Y L + + E
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223
Query: 301 LKEMRRKGCDPNANSYTVLIQALCRMEKMEEANRAFV 337
L++M ++G +QAL + E +RA V
Sbjct: 224 LEQMSQEGLK---------LQALFTAVLLSEEDRATV 251
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 34/156 (21%), Positives = 60/156 (38%), Gaps = 27/156 (17%)
Query: 216 LDALCKNSSVKEAAKLFDEMRER-FKPSLRHFTSLLYGWCKEGKLVEAKYVLVQMKDAGF 274
LD K V EA +L+DE R + S H+ LLY + + +A
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY--------------VCSLAEAAT 78
Query: 275 EPDIVVYNNLLSGYAQMGKMTDAFELLKEMRRKGCDPNANSYTVLIQALCRMEKMEEANR 334
E + ++ F++ K+M PN ++T + + E A
Sbjct: 79 ES------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFD 126
Query: 335 AFVEMERSGCEADVVTYTTLISGFCKSRKIDRCYEI 370
+M+ G + + +Y + GFC+ D+ YE+
Sbjct: 127 MVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162
>pdb|1XJL|A Chain A, Structure Of Human Annexin A2 In The Presence Of Calcium
Ions
pdb|1XJL|B Chain B, Structure Of Human Annexin A2 In The Presence Of Calcium
Ions
Length = 319
Score = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 16/88 (18%)
Query: 296 DAFELLKEMRRKGCDPNANSYTVLIQALCRM--EKMEEANRAFVEMERSGCEADVVTYTT 353
DA EL M+ G D ++ LI+ +C ++++E NR + EM ++ E D+++ T+
Sbjct: 90 DASELKASMKGLGTDEDS-----LIEIICSRTNQELQEINRVYKEMYKTDLEKDIISDTS 144
Query: 354 -----LISGFCKSRKIDRC----YEILD 372
L+ K R+ + YE++D
Sbjct: 145 GDFRKLMVALAKGRRAEDGSVIDYELID 172
>pdb|1W7B|A Chain A, Annexin A2: Does It Induce Membrane Aggregation By A New
Multimeric State Of The Protein
Length = 339
Score = 33.5 bits (75), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 16/88 (18%)
Query: 296 DAFELLKEMRRKGCDPNANSYTVLIQALCRM--EKMEEANRAFVEMERSGCEADVVTYTT 353
DA EL M+ G D ++ LI+ +C ++++E NR + EM ++ E D+++ T+
Sbjct: 110 DASELKASMKGLGTDEDS-----LIEIICSRTNQELQEINRVYKEMYKTDLEKDIISDTS 164
Query: 354 -----LISGFCKSRKIDRC----YEILD 372
L+ K R+ + YE++D
Sbjct: 165 GDFRKLMVALAKGRRAEDGSVIDYELID 192
>pdb|2HYU|A Chain A, Human Annexin A2 With Heparin Tetrasaccharide Bound
pdb|2HYV|A Chain A, Human Annexin A2 With Heparin Hexasaccharide Bound
pdb|2HYW|A Chain A, Human Annexin A2 With Calcium Bound
pdb|2HYW|B Chain B, Human Annexin A2 With Calcium Bound
Length = 308
Score = 33.5 bits (75), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 16/88 (18%)
Query: 296 DAFELLKEMRRKGCDPNANSYTVLIQALCRM--EKMEEANRAFVEMERSGCEADVVTYTT 353
DA EL M+ G D ++ LI+ +C ++++E NR + EM ++ E D+++ T+
Sbjct: 79 DASELKASMKGLGTDEDS-----LIEIICSRTNQELQEINRVYKEMYKTDLEKDIISDTS 133
Query: 354 -----LISGFCKSRKIDRC----YEILD 372
L+ K R+ + YE++D
Sbjct: 134 GDFRKLMVALAKGRRAEDGSVIDYELID 161
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 32/156 (20%), Positives = 58/156 (37%), Gaps = 27/156 (17%)
Query: 216 LDALCKNSSVKEAAKLFDEMRER-FKPSLRHFTSLLYGWCKEGKLVEAKYVLVQMKDAGF 274
LD K V EA +L+DE R + S H+ LLY + + +A
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY--------------VCSLAEAAT 78
Query: 275 EPDIVVYNNLLSGYAQMGKMTDAFELLKEMRRKGCDPNANSYTVLIQALCRMEKMEEANR 334
E + ++ F++ K+ PN ++T + + E A
Sbjct: 79 E------------SSPNPGLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFD 126
Query: 335 AFVEMERSGCEADVVTYTTLISGFCKSRKIDRCYEI 370
+ + G + + +Y + GFC+ D+ YE+
Sbjct: 127 XVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162
>pdb|3Q98|A Chain A, Structure Of Ygew Encoded Protein From E. Coli
Length = 399
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 5/57 (8%)
Query: 254 CKEGKLVEA---KYVLVQMKDAGFEPDIVVYNNLLSGYAQMGKMTDAFELLKEMRRK 307
CKEG++ E KY + K+A ++P I+ L YA+ G + + +LLKE + +
Sbjct: 343 CKEGEVTEGVFEKYRIATYKEASWKPYIIAAXILSRKYAKPGALLE--QLLKEAQER 397
>pdb|3F06|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101a Variant.
pdb|3F06|B Chain B, Crystal Structure Analysis Of Human Hdac8 D101a Variant
Length = 388
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 40/111 (36%), Gaps = 21/111 (18%)
Query: 132 PNYVHSYDVYRALIKSLSKMRKFGAVWALMEEMRKEKPQLITTEVFVILMRRFASARMVK 191
P YV D + K S + +AL ++MR KP++ + E + K
Sbjct: 22 PEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQK 81
Query: 192 KAIEVLDEMPK-------YGCEPDEFVFG--------------CLLDALCK 221
+ E D+ P Y C E +F CL+D +CK
Sbjct: 82 VSQEGDDDHPDSIEYGLGYACPATEGIFDYAAAIGGATITAAQCLIDGMCK 132
>pdb|3EZP|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101n Variant
pdb|3EZP|B Chain B, Crystal Structure Analysis Of Human Hdac8 D101n Variant
Length = 388
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 40/111 (36%), Gaps = 21/111 (18%)
Query: 132 PNYVHSYDVYRALIKSLSKMRKFGAVWALMEEMRKEKPQLITTEVFVILMRRFASARMVK 191
P YV D + K S + +AL ++MR KP++ + E + K
Sbjct: 22 PEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQK 81
Query: 192 KAIEVLDEMPK-------YGCEPDEFVFG--------------CLLDALCK 221
+ E D+ P Y C E +F CL+D +CK
Sbjct: 82 VSQEGDDDHPDSIEYGLGYNCPATEGIFDYAAAIGGATITAAQCLIDGMCK 132
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
0.322 0.135 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,491,809
Number of Sequences: 62578
Number of extensions: 620777
Number of successful extensions: 1574
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1559
Number of HSP's gapped (non-prelim): 20
length of query: 638
length of database: 14,973,337
effective HSP length: 105
effective length of query: 533
effective length of database: 8,402,647
effective search space: 4478610851
effective search space used: 4478610851
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)