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= 011054
(494 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DIX|A Chain A, Crystal Structure Of The Ig-Ph Domain Of Actin-Binding
Protein Scab1
pdb|4DIX|B Chain B, Crystal Structure Of The Ig-Ph Domain Of Actin-Binding
Protein Scab1
Length = 230
Score = 374 bits (960), Expect = e-104, Method: Compositional matrix adjust.
Identities = 168/224 (75%), Positives = 196/224 (87%)
Query: 270 SKRIEEKLSDSYELDGSEALGSYLRIKPCSNNGPELSKCSIQWYRVPSEGGKRELISGAT 329
S + EE +S YE+DG+EALGS LR++PCSN+ P+LSKC+IQWYR S+G K+ELISGAT
Sbjct: 4 SSKSEENISLVYEIDGTEALGSCLRVRPCSNDAPDLSKCTIQWYRSSSDGSKKELISGAT 63
Query: 330 KSVYAPEPFDVGRILQAEITYNGQQITLTTTGAVDPAPGLGSYVEALVRKHDVEFHVVVT 389
KSVYAPEPFDVGR+L A+I Y+G ++L+T G +DPA GLGSYVEALVRKHDV+F+VVVT
Sbjct: 64 KSVYAPEPFDVGRVLHADIIYDGHSLSLSTVGKIDPAAGLGSYVEALVRKHDVDFNVVVT 123
Query: 390 QMNGVDHPSESIHVLHVGKMRIKLCKGKMTIAKEYYSTSMQLCGVRGGGNAAAQALFWQA 449
QM+G DH SESIH+ HVGKMRIKLCKGK IAKEYYS++MQLCGVRGGGNAAAQAL+WQA
Sbjct: 124 QMSGEDHTSESIHLFHVGKMRIKLCKGKTVIAKEYYSSAMQLCGVRGGGNAAAQALYWQA 183
Query: 450 KKGVSFVLAFESERERNATIMLARRLAFDCNIMLAGPEDRSPLG 493
KKGVSFV+AFESERERNA IMLARR A DCN+ LAGPEDR+ G
Sbjct: 184 KKGVSFVIAFESERERNAAIMLARRFACDCNVTLAGPEDRTETG 227
>pdb|4DJG|A Chain A, Crystal Structure Of The Coiled-Coil 1 Domain Of
Actin-Binding Protein Scab1
pdb|4DJG|B Chain B, Crystal Structure Of The Coiled-Coil 1 Domain Of
Actin-Binding Protein Scab1
Length = 52
Score = 92.0 bits (227), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 46/46 (100%), Positives = 46/46 (100%)
Query: 106 HVLLKKLRDALESLRGRVAGRNKDDVEEAIAMVEALAVQLTQREGE 151
HVLLKKLRDALESLRGRVAGRNKDDVEEAIAMVEALAVQLTQREGE
Sbjct: 7 HVLLKKLRDALESLRGRVAGRNKDDVEEAIAMVEALAVQLTQREGE 52
>pdb|3P8C|A Chain A, Structure And Control Of The Actin Regulatory Wave Complex
Length = 1253
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 52/117 (44%), Gaps = 10/117 (8%)
Query: 113 RDALESLRGRV-----AGRNKDDVEEAIAMVEALAVQLTQREGELIQEKAEVKKLADFLK 167
R+A+E G V A R KD V EA + + + EL K VK K
Sbjct: 130 RNAIERFCGEVRRLCHAERRKDFVSEAYLITLGKFINMFAVLDELKNMKCSVKNDHSAYK 189
Query: 168 KASEDAKKLVDEERAFARAEIESARAAVQRVEESLQEHEQMSRASGKQDFEELMKEV 224
+A++ +K+ D + + A ++ +SLQ +Q+ SG +EEL+ ++
Sbjct: 190 RAAQFLRKMADPQSIQESQNLSMFLANHNKITQSLQ--QQLEVISG---YEELLADI 241
>pdb|3BDZ|A Chain A, The Role Of Asn 242 In P450cin
pdb|3BDZ|B Chain B, The Role Of Asn 242 In P450cin
pdb|3BE0|A Chain A, The Role Of Asn 242 In P450cin
pdb|3BE0|B Chain B, The Role Of Asn 242 In P450cin
Length = 397
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 31 FPNYKIGANNQVVDGKDDPKVLSMKEVVAR----ETAQLLEQQKRLSVRDLAN 79
FP Y+ G ++ G+DDP +++VA+ E L +Q R S DL +
Sbjct: 71 FPRYETGEFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLID 123
>pdb|4FB2|A Chain A, Crystal Structure Of Substrate-Free P450cin
pdb|4FB2|B Chain B, Crystal Structure Of Substrate-Free P450cin
pdb|4FB2|C Chain C, Crystal Structure Of Substrate-Free P450cin
pdb|4FB2|D Chain D, Crystal Structure Of Substrate-Free P450cin
pdb|4FYZ|A Chain A, Crystal Structure Of Nitrosyl Cytochrome P450cin
pdb|4FYZ|B Chain B, Crystal Structure Of Nitrosyl Cytochrome P450cin
pdb|4FMX|A Chain A, Crystal Structure Of Substrate-Bound P450cin
pdb|4FMX|B Chain B, Crystal Structure Of Substrate-Bound P450cin
Length = 398
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 31 FPNYKIGANNQVVDGKDDPKVLSMKEVVAR----ETAQLLEQQKRLSVRDLAN 79
FP Y+ G ++ G+DDP +++VA+ E L +Q R S DL +
Sbjct: 72 FPRYETGEFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLID 124
>pdb|1T2B|A Chain A, Crystal Structure Of Cytochrome P450cin Complexed With Its
Substrate 1,8-Cineole
pdb|1T2B|B Chain B, Crystal Structure Of Cytochrome P450cin Complexed With Its
Substrate 1,8-Cineole
Length = 397
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 31 FPNYKIGANNQVVDGKDDPKVLSMKEVVAR----ETAQLLEQQKRLSVRDLAN 79
FP Y+ G ++ G+DDP +++VA+ E L +Q R S DL +
Sbjct: 71 FPRYETGEFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLID 123
>pdb|1EJ9|A Chain A, Crystal Structure Of Human Topoisomerase I Dna Complex
Length = 563
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 61/125 (48%), Gaps = 19/125 (15%)
Query: 109 LKKLRDALESLRGRVAGRNKDDVEEAIAMVEALAVQLTQREGEL-IQEKAEVKK--LADF 165
LK+L E++ ++ N+ + AI +A T + + +Q K + KK LAD
Sbjct: 400 LKELTAPDENIPAKILSYNRANRAVAILCNHQIAPPKTFEKSMMNLQTKIDAKKEQLADA 459
Query: 166 ---LKKASEDAKKLVDEERAFARAEIESARAAVQRVEESL----------QEHEQMSRAS 212
LK A DAK + D A + +ES + AVQR+EE L +E++Q++ +
Sbjct: 460 RRDLKSAKADAKVMKD---AKTKKVVESKKKAVQRLEEQLMKLEVQATDREENKQIALGT 516
Query: 213 GKQDF 217
K +F
Sbjct: 517 SKLNF 521
>pdb|1ML4|A Chain A, The Pala-Liganded Aspartate Transcarbamoylase Catalytic
Subunit From Pyrococcus Abyssi
Length = 308
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 181 RAFARAEIESARAAVQRVEESLQEHEQMSRASGK 214
R F++ +IE+ A +R+E L+E Q+ A GK
Sbjct: 12 RDFSKEDIETVLATAERLERELKEKGQLEYAKGK 45
>pdb|1A35|A Chain A, Human Topoisomerase IDNA COMPLEX
pdb|1A36|A Chain A, Topoisomerase IDNA COMPLEX
Length = 591
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 18/80 (22%)
Query: 153 IQEKAEVKK--LADF---LKKASEDAKKLVDEERAFARAEIESARAAVQRVEESL----- 202
+Q K + KK LAD LK A DAK + D A + +ES + AVQR+EE L
Sbjct: 473 LQTKIDAKKEQLADARRDLKSAKADAKVMKD---AKTKKVVESKKKAVQRLEEQLMKLEV 529
Query: 203 -----QEHEQMSRASGKQDF 217
+E++Q++ + K +F
Sbjct: 530 QATDREENKQIALGTSKLNF 549
>pdb|1R49|A Chain A, Human Topoisomerase I (Topo70) Double Mutant K532rY723F
Length = 592
Score = 28.5 bits (62), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 18/80 (22%)
Query: 153 IQEKAEVKK--LADF---LKKASEDAKKLVDEERAFARAEIESARAAVQRVEESL----- 202
+Q K + KK LAD LK A DAK + D A + +ES + AVQR+EE L
Sbjct: 474 LQTKIDAKKEQLADARRDLKSAKADAKVMKD---AKTKKVVESKKKAVQRLEEQLMKLEV 530
Query: 203 -----QEHEQMSRASGKQDF 217
+E++Q++ + K +F
Sbjct: 531 QATDREENKQIALGTSKLNF 550
>pdb|1LPQ|A Chain A, Human Dna Topoisomerase I (70 Kda) In Non-Covalent Complex
With A 22 Base Pair Dna Duplex Containing An 8-Oxog
Lesion
Length = 564
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 18/80 (22%)
Query: 153 IQEKAEVKK--LADF---LKKASEDAKKLVDEERAFARAEIESARAAVQRVEESL----- 202
+Q K + KK LAD LK A DAK + D A + +ES + AVQR+EE L
Sbjct: 446 LQTKIDAKKEQLADARRDLKSAKADAKVMKD---AKTKKVVESKKKAVQRLEEQLMKLEV 502
Query: 203 -----QEHEQMSRASGKQDF 217
+E++Q++ + K +F
Sbjct: 503 QATDREENKQIALGTSKLNF 522
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
0.315 0.130 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,301,213
Number of Sequences: 62578
Number of extensions: 461737
Number of successful extensions: 1681
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 46
Number of HSP's that attempted gapping in prelim test: 1641
Number of HSP's gapped (non-prelim): 68
length of query: 494
length of database: 14,973,337
effective HSP length: 103
effective length of query: 391
effective length of database: 8,527,803
effective search space: 3334370973
effective search space used: 3334370973
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)