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= 008406
(567 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A7Q|A Chain A, Structural Basis For Specific Recognition Of Reelin By Its
Receptors
Length = 725
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 274 VPVSSTCVNQCSGHGHCRGGFCQCDSGWYGVDCSIPSVMSSMSEWPQWLRPAHIDIPINA 333
V + C++ CSGHG C G C CD W G+ C P + P L+ P N
Sbjct: 531 VYIGDGCLDMCSGHGRCVQGSCVCDEQWGGLYCDEPE-----TSLPTQLKDNFNRAPSNQ 585
Query: 334 N 334
N
Sbjct: 586 N 586
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 274 VPVSSTCVNQCSGHGHCRGGF-CQCDSGWYGVDCSIPS 310
V + C C GHG C G C CD G+ G C I +
Sbjct: 182 VYIGPQCEEMCYGHGSCINGTKCICDPGYSGPTCKIST 219
>pdb|2E26|A Chain A, Crystal Structure Of Two Repeat Fragment Of Reelin
Length = 725
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 274 VPVSSTCVNQCSGHGHCRGGFCQCDSGWYGVDCSIPSVMSSMSEWPQWLRPAHIDIPINA 333
V + C++ CSGHG C G C CD W G+ C P + P L+ P N
Sbjct: 531 VYIGDGCLDMCSGHGRCVQGSCVCDEQWGGLYCDEPE-----TSLPTQLKDNFNRAPSNQ 585
Query: 334 N 334
N
Sbjct: 586 N 586
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 274 VPVSSTCVNQCSGHGHCRGGF-CQCDSGWYGVDCSIPS 310
V + C C GHG C G C CD G+ G C I +
Sbjct: 182 VYIGPQCEEMCYGHGSCINGTKCICDPGYSGPTCKIST 219
>pdb|1JV2|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|B Chain B, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 692
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 264 YDGLLGQFCEVPVSSTCV----NQCSGHGHCRGGFCQCDSGWYGVDCS 307
+ + G++CE +CV CSGHG C G C CDS W G C+
Sbjct: 513 FGKITGKYCECD-DFSCVRYKGEMCSGHGQCSCGDCLCDSDWTGYYCN 559
>pdb|3IJE|B Chain B, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 695
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 264 YDGLLGQFCEVPVSSTCV----NQCSGHGHCRGGFCQCDSGWYGVDCS 307
+ + G++CE +CV CSGHG C G C CDS W G C+
Sbjct: 513 FGKITGKYCECD-DFSCVRYKGEMCSGHGQCSCGDCLCDSDWTGYYCN 559
>pdb|4G1E|B Chain B, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 738
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 264 YDGLLGQFCEVPVSSTCV----NQCSGHGHCRGGFCQCDSGWYGVDCS 307
+ + G++CE S CV CSGHG C G C CDS W G C+
Sbjct: 513 FGKITGKYCECDDFS-CVRYKGEMCSGHGQCSCGDCLCDSDWTGYYCN 559
>pdb|4G1M|B Chain B, Re-Refinement Of Alpha V Beta 3 Structure
Length = 692
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 264 YDGLLGQFCEVPVSSTCV----NQCSGHGHCRGGFCQCDSGWYGVDCS 307
+ + G++CE +CV CSGHG C G C CDS W G C+
Sbjct: 513 FGKITGKYCECD-DFSCVRYKGEMCSGHGQCSCGDCLCDSDWTGYYCN 559
>pdb|3FCS|B Chain B, Structure Of Complete Ectodomain Of Integrin Aiibb3
pdb|3FCS|D Chain D, Structure Of Complete Ectodomain Of Integrin Aiibb3
Length = 690
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 264 YDGLLGQFCEVPVSSTCV----NQCSGHGHCRGGFCQCDSGWYGVDCS 307
+ + G++CE +CV CSGHG C G C CDS W G C+
Sbjct: 513 FGKITGKYCECD-DFSCVRYKGEMCSGHGQCSCGDCLCDSDWTGYYCN 559
>pdb|2DDU|A Chain A, Crystal Structure Of The Third Repeat Domain Of Reelin
Length = 387
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 274 VPVSSTCVNQCSGHGHCRGGFCQCDSGW 301
V +S C + CSGHG C G C CD G+
Sbjct: 188 VYISEPCPSYCSGHGDCISGVCFCDLGY 215
>pdb|1YUK|B Chain B, The Crystal Structure Of The PsiHYBRID DOMAIN I-Egf1
Segment From The Human Integrin Beta2 At 1.8 Resolution
Length = 120
Score = 32.3 bits (72), Expect = 0.68, Method: Composition-based stats.
Identities = 26/124 (20%), Positives = 43/124 (34%), Gaps = 33/124 (26%)
Query: 189 FCGEGTKYPNRPVAEACGFQVNLPSQPGAPKSTDWAKADLDNIFTTNGSKPGWCNVDPEE 248
FC G + N+P + G Q+N+P + + + G
Sbjct: 21 FCSNGVTHRNQPRGDCDGVQINVPITFQVKVTATECIQEQSFVIRALGFTD--------- 71
Query: 249 AYALKVQFKEECDCKYDGLLGQFCEVPVSSTCVNQ------CSGHGHCRGGFCQCDSGWY 302
+ VQ +C+C+ C +Q C G G G C+CD+G+
Sbjct: 72 --IVTVQVLPQCECR----------------CRDQSRDRSLCHGKGFLECGICRCDTGYI 113
Query: 303 GVDC 306
G +C
Sbjct: 114 GKNC 117
>pdb|1FAX|L Chain L, Coagulation Factor Xa Inhibitor Complex
Length = 96
Score = 31.6 bits (70), Expect = 1.3, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 3/35 (8%)
Query: 120 GKSCK-SDCSGQGVCNHELGQ--CRCFHGFRGKGC 151
G C+ S C QG C LG+ C C GF GK C
Sbjct: 4 GDQCETSPCQNQGKCKDGLGEYTCTCLEGFEGKNC 38
>pdb|3K6S|B Chain B, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|D Chain D, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|F Chain F, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|H Chain H, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K71|B Chain B, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|D Chain D, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|F Chain F, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|H Chain H, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K72|B Chain B, Structure Of Integrin Alphax Beta2
pdb|3K72|D Chain D, Structure Of Integrin Alphax Beta2
Length = 687
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 41/92 (44%), Gaps = 12/92 (13%)
Query: 91 NAPWKAEIGRWLSGCDSVAKEVDLVEMIGGKSCKSDCSGQGVCNHELGQCRCFHGFRGKG 150
+ P K G++ CD++ E ++ GG G+G+C G+CRC GF G
Sbjct: 501 DVPGKLIYGQYCE-CDTINCERYNGQVCGG-------PGRGLCF--CGKCRCHPGFEGSA 550
Query: 151 CS-ERIHFQCNFPKTPELP-YGRWVVSICPTH 180
C ER C P+ E GR ++C H
Sbjct: 551 CQCERTTEGCLNPRRVECSGRGRCRCNVCECH 582
Score = 30.0 bits (66), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 29/141 (20%), Positives = 47/141 (33%), Gaps = 33/141 (23%)
Query: 189 FCGEGTKYPNRPVAEACGFQVNLPSQPGAPKSTDWAKADLDNIFTTNGSKPGWCNVDPEE 248
FC G + N+P + G Q+N+P + + + G
Sbjct: 363 FCSNGVTHRNQPRGDCDGVQINVPITFQVKVTATECIQEQSFVIRALGFTD--------- 413
Query: 249 AYALKVQFKEECDCKYDGLLGQFCEVPVSSTCVNQ------CSGHGHCRGGFCQCDSGWY 302
+ VQ +C+C+ C +Q C G G G C+CD+G+
Sbjct: 414 --IVTVQVLPQCECR----------------CRDQSRDRSLCHGKGFLECGICRCDTGYI 455
Query: 303 GVDCSIPSVMSSMSEWPQWLR 323
G +C + S E R
Sbjct: 456 GKNCECQTQGRSSQELEGSCR 476
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 6/51 (11%)
Query: 256 FKEECDCKYDGLLGQFCEVP-VSSTCVN----QCSGHGHCRGGFCQCDSGW 301
F +C C + G G C+ + C+N +CSG G CR C+C SG+
Sbjct: 536 FCGKCRC-HPGFEGSACQCERTTEGCLNPRRVECSGRGRCRCNVCECHSGY 585
>pdb|2YGQ|A Chain A, Wif Domain-Epidermal Growth Factor (Egf)-Like Domains 1-3
Of Human Wnt Inhibitory Factor 1 In Complex With
1,2-Dipalmitoylphosphatidylcholine
Length = 324
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 260 CDCKYDGLLGQFCEVPVSSTCVNQCSGHGHC-RGGFCQCDSGWYGVDC 306
C+C DG G CE + C +C G C GFC C G+YGV+C
Sbjct: 167 CECP-DGFHGPHCE---KALCTPRCMNGGLCVTPGFCICPPGFYGVNC 210
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 257 KEECDCKYDGLLGQFCEVPVSSTCVNQCSGHGHC-RGGFCQCDSGWYGVDCS 307
K +C C G G C PV C C HG C CQC GW+G C+
Sbjct: 260 KSKCKCS-KGYQGDLCSKPV---CEPGCGAHGTCHEPNKCQCQEGWHGRHCN 307
>pdb|1NFU|B Chain B, Crystal Structure Of Human Coagulation Factor Xa Complexed
With Rpr132747
Length = 195
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 3/35 (8%)
Query: 120 GKSCK-SDCSGQGVCNHELGQ--CRCFHGFRGKGC 151
G C+ S C QG C LG+ C C GF GK C
Sbjct: 42 GDQCETSPCQNQGKCKDGLGEYTCTCLEGFEGKNC 76
>pdb|3IZR|H Chain H, Localization Of The Large Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 258
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 52 VPIKESAERVTNRVWENSPPQLNLDHRFP--ADLHNAV 87
VP K+ E+VTN ++E P Q + P DLH V
Sbjct: 11 VPAKKKTEKVTNPLFEKRPKQFGIGGALPPKKDLHRFV 48
>pdb|2H9E|L Chain L, Crystal Structure Of FxaSELECTIDENAPC2 TERNARY COMPLEX
Length = 149
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 3/35 (8%)
Query: 120 GKSCK-SDCSGQGVCNHELGQ--CRCFHGFRGKGC 151
G C+ S C QG C LG+ C C GF GK C
Sbjct: 2 GDQCETSPCQNQGKCKDGLGEYTCTCLEGFEGKNC 36
>pdb|2P26|A Chain A, Structure Of The Phe2 And Phe3 Fragments Of The Integrin
Beta2 Subunit
Length = 280
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 29/141 (20%), Positives = 47/141 (33%), Gaps = 33/141 (23%)
Query: 189 FCGEGTKYPNRPVAEACGFQVNLPSQPGAPKSTDWAKADLDNIFTTNGSKPGWCNVDPEE 248
FC G + N+P + G Q+N+P + + + G
Sbjct: 124 FCSNGVTHRNQPRGDCDGVQINVPITFQVKVTATECIQEQSFVIRALGFTD--------- 174
Query: 249 AYALKVQFKEECDCKYDGLLGQFCEVPVSSTCVNQ------CSGHGHCRGGFCQCDSGWY 302
+ VQ +C+C+ C +Q C G G G C+CD+G+
Sbjct: 175 --IVTVQVLPQCECR----------------CRDQSRDRSLCHGKGFLECGICRCDTGYI 216
Query: 303 GVDCSIPSVMSSMSEWPQWLR 323
G +C + S E R
Sbjct: 217 GKNCECQTQGRSSQELEGSCR 237
>pdb|2GY5|A Chain A, Tie2 Ligand-Binding Domain Crystal Structure
pdb|2GY7|B Chain B, Angiopoietin-2TIE2 COMPLEX CRYSTAL STRUCTURE
Length = 423
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 125 SDCSGQGVCNHELGQCRCFHGFRGKGCSE 153
+ C GVC+ + G+C C GF G+ C +
Sbjct: 203 TACMNNGVCHEDTGECICPPGFMGRTCEK 231
>pdb|3CFW|A Chain A, L-selectin Lectin And Egf Domains
Length = 164
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 284 CSGHGHC----RGGFCQCDSGWYGVDCSIPSV 311
CSGHG C C CD G+YG C V
Sbjct: 127 CSGHGECVEIINNYTCNCDVGYYGPQCQFVQV 158
>pdb|3NID|B Chain B, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NID|D Chain D, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NIF|B Chain B, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIF|D Chain D, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|B Chain B, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|D Chain D, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
Length = 471
Score = 28.9 bits (63), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 24/56 (42%), Gaps = 8/56 (14%)
Query: 251 ALKVQFKEECDCKYDGLLGQFCEVPVSSTCVNQCSGHGHCRGGFCQCDSGWYGVDC 306
+L VQ +CDC Q P S C N G+G G C+C GW G C
Sbjct: 424 SLIVQVTFDCDCAC-----QAQAEPNSHRCNN---GNGTFECGVCRCGPGWLGSQC 471
>pdb|3T3M|B Chain B, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|D Chain D, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|B Chain B, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|D Chain D, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 472
Score = 28.9 bits (63), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 24/56 (42%), Gaps = 8/56 (14%)
Query: 251 ALKVQFKEECDCKYDGLLGQFCEVPVSSTCVNQCSGHGHCRGGFCQCDSGWYGVDC 306
+L VQ +CDC Q P S C N G+G G C+C GW G C
Sbjct: 424 SLIVQVTFDCDCAC-----QAQAEPNSHRCNN---GNGTFECGVCRCGPGWLGSQC 471
>pdb|2P28|B Chain B, Structure Of The Phe2 And Phe3 Fragments Of The Integrin
Beta2 Subunit
Length = 217
Score = 28.5 bits (62), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 29/141 (20%), Positives = 47/141 (33%), Gaps = 33/141 (23%)
Query: 189 FCGEGTKYPNRPVAEACGFQVNLPSQPGAPKSTDWAKADLDNIFTTNGSKPGWCNVDPEE 248
FC G + N+P + G Q+N+P + + + G
Sbjct: 24 FCSNGVTHRNQPRGDCDGVQINVPITFQVKVTATECIQEQSFVIRALGFTD--------- 74
Query: 249 AYALKVQFKEECDCKYDGLLGQFCEVPVSSTCVNQ------CSGHGHCRGGFCQCDSGWY 302
+ VQ +C+C+ C +Q C G G G C+CD+G+
Sbjct: 75 --IVTVQVLPQCECR----------------CRDQSRDRSLCHGKGFLECGICRCDTGYI 116
Query: 303 GVDCSIPSVMSSMSEWPQWLR 323
G +C + S E R
Sbjct: 117 GKNCECQTQGRSSQELEGSCR 137
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 0.136 0.469
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,908,146
Number of Sequences: 62578
Number of extensions: 832329
Number of successful extensions: 1673
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 1580
Number of HSP's gapped (non-prelim): 107
length of query: 567
length of database: 14,973,337
effective HSP length: 104
effective length of query: 463
effective length of database: 8,465,225
effective search space: 3919399175
effective search space used: 3919399175
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)