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= psy16054
(563 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3M0C|C Chain C, The X-Ray Crystal Structure Of Pcsk9 In Complex With The
Ldl Receptor
Length = 791
Score = 42.4 bits (98), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%)
Query: 133 LPILKTDEPVCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACSV 179
L + + D C + C +GECI + CD PDCKD+SDE C+V
Sbjct: 184 LYVFQGDSSPCSAFEFHCLSGECIHSSWRCDGGPDCKDKSDEENCAV 230
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACSV 179
C + + C +G+CI + CD DC D SDE +C V
Sbjct: 105 TCSQDEFRCHDGKCISRQFVCDSDRDCLDGSDEASCPV 142
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENAC---SVEQDPNRAPDCDPTQCALPD 198
C + C +G CI + CD + DCKD SDE C ++ + PN+ C +C D
Sbjct: 232 TCRPDEFQCSDGNCIHGSRQCDREYDCKDMSDEVGCVNVTLCEGPNKFK-CHSGECITLD 290
Query: 199 CFCS 202
C+
Sbjct: 291 KVCN 294
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 143 CPEGKLSCGNGECIDKTLFCDDKPDCKDESDEN 175
C + C +G+CI CD +C+D SDE+
Sbjct: 24 CERNEFQCQDGKCISYKWVCDGSAECQDGSDES 56
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 142 VCPEGKLSCGN--GECIDKTLFCDDKPDCKDESDENAC---SVEQDPNRAPD 188
C G SCG CI + CD + DC + SDE C + QD R D
Sbjct: 64 TCKSGDFSCGGRVNRCIPQFWRCDGQVDCDNGSDEQGCPPKTCSQDEFRCHD 115
>pdb|1N7D|A Chain A, Extracellular Domain Of The Ldl Receptor
Length = 699
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%)
Query: 133 LPILKTDEPVCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACSV 179
L + + D C + C +GECI + CD PDCKD+SDE C+V
Sbjct: 166 LYVFQGDSSPCSAFEFHCLSGECIHSSWRCDGGPDCKDKSDEENCAV 212
Score = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACSV 179
C + + C +G+CI + CD DC D SDE +C V
Sbjct: 87 TCSQDEFRCHDGKCISRQFVCDSDRDCLDGSDEASCPV 124
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENAC---SVEQDPNRAPDCDPTQCALPD 198
C + C +G CI + CD + DCKD SDE C ++ + PN+ C +C D
Sbjct: 214 TCRPDEFQCSDGNCIHGSRQCDREYDCKDMSDEVGCVNVTLCEGPNKFK-CHSGECITLD 272
Query: 199 CFCS 202
C+
Sbjct: 273 KVCN 276
Score = 28.9 bits (63), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 143 CPEGKLSCGNGECIDKTLFCDDKPDCKDESDEN 175
C + C +G+CI CD +C+D SDE+
Sbjct: 6 CERNEFQCQDGKCISYKWVCDGSAECQDGSDES 38
>pdb|2LGP|A Chain A, Solution Structure Of La45 From Ldlr
Length = 94
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 131 KVLPILKTDEPVCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACSV 179
+ L + + D C + C +GECI + CD PDCKD+SDE C+V
Sbjct: 44 RGLYVFQGDSSPCSAFEFHCLSGECIHSSWRCDGGPDCKDKSDEENCAV 92
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDE 174
C C + CI + CD+ PDC+D SDE
Sbjct: 6 TCGPASFQCNSSTCIPQLWACDNDPDCEDGSDE 38
>pdb|2GTL|M Chain M, Lumbricus Erythrocruorin At 3.5a Resolution
Length = 217
Score = 35.4 bits (80), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 38/80 (47%), Gaps = 20/80 (25%)
Query: 105 LAFDVDKQTC-DWKAKVTNCNQLDRPRKVLPILKTDEPVCPEGKLSCGNG--ECIDKTLF 161
L DVDK+T KA+++N +E C E + C ECI LF
Sbjct: 30 LTHDVDKKTIRQLKARISN---------------LEEHHCDEHESECRGDVPECIHDLLF 74
Query: 162 CDDKPDCKDESDEN--ACSV 179
CD + DC+D SDE+ CS+
Sbjct: 75 CDGEKDCRDGSDEDPETCSL 94
>pdb|1AJJ|A Chain A, Ldl Receptor Ligand-Binding Module 5, Calcium-Coordinating
Length = 37
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%)
Query: 143 CPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACS 178
C + C +GECI + CD PDCKD+SDE C+
Sbjct: 2 CSAFEFHCLSGECIHSSWRCDGGPDCKDKSDEENCA 37
>pdb|2FYJ|A Chain A, Nmr Solution Structure Of Calcium-Loaded Lrp Double Module
pdb|2FYL|B Chain B, Haddock Model Of The Complex Between Double Module Of Lrp,
Cr56, And First Domain Of Receptor Associated Protein,
Rap- D1
Length = 82
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/39 (46%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 141 PVC-PEGKLSCGNGECIDKTLFCDDKPDCKDESDENACS 178
P C P + +C NG CI+ CD+ DC D SDE CS
Sbjct: 43 PTCFPLTQFTCNNGRCININWRCDNDNDCGDNSDEAGCS 81
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 25/59 (42%), Gaps = 16/59 (27%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACSVEQDPNRAPDCDPTQCALPDCF 200
CP + SC +G CI + CD DC D SDE+A CA P CF
Sbjct: 4 TCPPNQFSCASGRCIPISWTCDLDDDCGDRSDESA----------------SCAYPTCF 46
>pdb|2GTL|O Chain O, Lumbricus Erythrocruorin At 3.5a Resolution
Length = 215
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 135 ILKTDEPVCPEGKLSCGNG--ECIDKTLFCDDKPDCKDESDENACSVEQDPNRAPD 188
+ + ++P C E + CG +CI K CD DC++ DE C++ P +A D
Sbjct: 47 VEELEDPSCDEHEHQCGGDDPQCISKLFVCDGHNDCRNGEDEKDCTL---PTKAGD 99
>pdb|2FCW|B Chain B, Structure Of A Complex Between The Pair Of The Ldl
Receptor Ligand-Binding Modules 3-4 And The Receptor
Associated Protein (Rap)
Length = 80
Score = 33.1 bits (74), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACSV 179
C + + C +G+CI + CD DC D SDE +C V
Sbjct: 2 TCSQAEFRCHDGKCISRQFVCDSDRDCLDGSDEASCPV 39
Score = 28.5 bits (62), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 5/42 (11%)
Query: 138 TDEPVCP-----EGKLSCGNGECIDKTLFCDDKPDCKDESDE 174
+DE CP C + CI + CD+ PDC+D SDE
Sbjct: 32 SDEASCPVLTCGPASFQCNSSTCIPQLWACDNDPDCEDGSDE 73
>pdb|3T5O|A Chain A, Crystal Structure Of Human Complement Component C6
pdb|4A5W|B Chain B, Crystal Structure Of C5b6
pdb|4E0S|B Chain B, Crystal Structure Of C5b-6
Length = 913
Score = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 135 ILKTDEPVCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENAC 177
+ K +E C + K C +G CI + L C+ + DC D SDE C
Sbjct: 111 LCKIEEADC-KNKFRCDSGRCIARKLECNGENDCGDNSDERDC 152
>pdb|3OJY|B Chain B, Crystal Structure Of Human Complement Component C8
Length = 537
Score = 32.3 bits (72), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 145 EGKLSCGNGECIDKTLFCDDKPDCKDESDENAC 177
EG + G C+++ L C+ DC D+SDE C
Sbjct: 69 EGFVCAQTGRCVNRRLLCNGDNDCGDQSDEANC 101
>pdb|3O0H|A Chain A, Crystal Structure Of Glutathione Reductase From Bartonella
Henselae
pdb|3O0H|B Chain B, Crystal Structure Of Glutathione Reductase From Bartonella
Henselae
Length = 484
Score = 32.0 bits (71), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 28 LCEGRPPEEYFRLTIEGDCRDVVRCDQAGENG--ITRLAGVRCPNGLAFDIDRQT 80
+ G P + + +L ++G+ R VV GEN I +L G+ L DI +T
Sbjct: 401 VLSGSPEKMFMKLVVDGESRIVVGAHVLGENAGEIAQLIGISLKGKLTKDIFDKT 455
>pdb|1JRF|A Chain A, Nmr Solution Structure Of The Viral Receptor Domain Of Tva
Length = 47
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 5/42 (11%)
Query: 143 CPEGKLSC-----GNGECIDKTLFCDDKPDCKDESDENACSV 179
CP G+ C +GEC + CD PDC D DE C
Sbjct: 5 CPPGQFRCSEPPGAHGECYPQDWLCDGHPDCDDGRDEWGCGT 46
>pdb|1D2L|A Chain A, Nmr Solution Structure Of Complement-Like Repeat Cr3 From
The Low Density Lipoprotein Receptor-Related Protein
(Lrp) . Evidence For Specific Binding To The Receptor
Binding Domain Of Human Alpha-2 Macroglobulin
Length = 45
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 18/34 (52%)
Query: 141 PVCPEGKLSCGNGECIDKTLFCDDKPDCKDESDE 174
P C G+ +C N CI + CD DC D SDE
Sbjct: 4 PQCQPGEFACANSRCIQERWKCDGDNDCLDNSDE 37
>pdb|1K7B|A Chain A, Nmr Solution Structure Of Stva47, The Viral-Binding Domain
Of Tva
Length = 47
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 143 CPEGKLSC-----GNGECIDKTLFCDDKPDCKDESDENACS 178
CP G+ C +GEC + CD PDC D DE C
Sbjct: 7 CPPGQFRCSEPPGAHGECYPQDWLCDGHPDCDDGRDEWGCG 47
>pdb|2M0P|A Chain A, Solution Structure Of The Tenth Complement Type Repeat Of
Human Megalin
Length = 52
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 143 CPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACS 178
C + + +C N +CI K CD DC D SDE C+
Sbjct: 7 CLDTQYTCDNHQCISKNWVCDTDNDCGDGSDEKNCN 42
>pdb|2JG0|A Chain A, Family 37 Trehalase From Escherichia Coli In Complex With
1- Thiatrehazolin
pdb|2JJB|A Chain A, Family 37 Trehalase From Escherichia Coli In Complex With
Casuarine-6-O-Alpha-Glucopyranose
pdb|2JJB|B Chain B, Family 37 Trehalase From Escherichia Coli In Complex With
Casuarine-6-O-Alpha-Glucopyranose
pdb|2JJB|C Chain C, Family 37 Trehalase From Escherichia Coli In Complex With
Casuarine-6-O-Alpha-Glucopyranose
pdb|2JJB|D Chain D, Family 37 Trehalase From Escherichia Coli In Complex With
Casuarine-6-O-Alpha-Glucopyranose
pdb|2WYN|A Chain A, Structure Of Family 37 Trehalase From Escherichia Coli In
Complex With A Casuarine-6-O-A-D-Glucoside Analogue
pdb|2WYN|B Chain B, Structure Of Family 37 Trehalase From Escherichia Coli In
Complex With A Casuarine-6-O-A-D-Glucoside Analogue
pdb|2WYN|C Chain C, Structure Of Family 37 Trehalase From Escherichia Coli In
Complex With A Casuarine-6-O-A-D-Glucoside Analogue
pdb|2WYN|D Chain D, Structure Of Family 37 Trehalase From Escherichia Coli In
Complex With A Casuarine-6-O-A-D-Glucoside Analogue
Length = 535
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 54/140 (38%), Gaps = 16/140 (11%)
Query: 373 HKCNGNAHNCPSKSHPTWEMVMNEL--DRRDDPTFDESLPG-----CHMVDSCSNIQTGE 425
H NGN S+S P + +M EL D + LP + +D N+Q G+
Sbjct: 163 HIPNGNRSYYLSRSQPPFFALMVELLAQHEGDAALKQYLPQMQKEYAYWMDGVENLQAGQ 222
Query: 426 QFGRLLRHN----FNRHFSTNRAPLGLHFHASWLKSKKEFKDELIKFIEEML-DRNDVYF 480
Q R+++ NR++ P SW++ K + E+ D
Sbjct: 223 QEKRVVKLQDGTLLNRYWDDRDTPRP----ESWVEDIATAKSNPNRPATEIYRDLRSAAA 278
Query: 481 VTMLQVIQWMQNPTELTSLR 500
+WM NP +L +LR
Sbjct: 279 SGWDFSSRWMDNPQQLNTLR 298
>pdb|2XRC|A Chain A, Human Complement Factor I
pdb|2XRC|B Chain B, Human Complement Factor I
pdb|2XRC|C Chain C, Human Complement Factor I
pdb|2XRC|D Chain D, Human Complement Factor I
Length = 565
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 137 KTDEPVCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENACSVEQDPN---RAPDCDPTQ 193
K D P+ + C NG+ I + CD DC D+SDE C Q ++ C P+Q
Sbjct: 200 KADSPM--DDFFQCVNGKYISQMKACDGINDCGDQSDELCCKACQGKGFHCKSGVCIPSQ 257
>pdb|2KRI|B Chain B, Structure Of A Complex Between Domain V Of Beta2-
Glycoprotein I And The Fourth Ligand-Binding Module From
Ldlr Determined With Haddock
Length = 40
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDE 174
C C + CI + CD+ PDC+D SDE
Sbjct: 1 TCGPASFQCNSSTCIPQLWACDNDPDCEDGSDE 33
>pdb|3OJY|A Chain A, Crystal Structure Of Human Complement Component C8
Length = 554
Score = 29.3 bits (64), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 35/93 (37%), Gaps = 22/93 (23%)
Query: 153 GECIDKTLFCDDKPDCKDESDENACSVEQDPNRAPDCDPTQCALPDCFCSADGTRIPGGI 212
G C+ + L C+ DC D SDE+ C + RA D D +Q
Sbjct: 76 GRCLKRHLVCNGDQDCLDGSDEDDC----EDVRAIDEDCSQ------------------Y 113
Query: 213 EPNQVPQMITITFNGAVNVDNSDLYDEIFNGNR 245
EP Q + +N D +YD + G +
Sbjct: 114 EPIPGSQKAALGYNILTQEDAQSVYDASYYGGQ 146
>pdb|1F8Z|A Chain A, Nmr Structure Of The Sixth Ligand-Binding Module Of The
Ldl Receptor
Length = 39
Score = 29.3 bits (64), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 142 VCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENAC 177
C + C +G CI + CD + DCKD SDE C
Sbjct: 2 TCRPDEFQCSDGNCIHGSRQCDREYDCKDMSDEVGC 37
>pdb|1D2J|A Chain A, Ldl Receptor Ligand-Binding Module 6
Length = 40
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%)
Query: 141 PVCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENAC 177
C + C +G CI + CD + DCKD SDE C
Sbjct: 2 ATCRPDEFQCSDGNCIHGSRQCDREYDCKDLSDEVGC 38
>pdb|2I1P|A Chain A, Solution Structure Of The Twelfth Cysteine-Rich Ligand-
Binding Repeat In Rat Megalin
Length = 48
Score = 28.9 bits (63), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 143 CPEGKLSCGNGE-CIDKTLFCDDKPDCKDESDENACSVEQDPNRAP 187
C + C +G CI+ CD DC+D SDE C P R P
Sbjct: 7 CTSAQFKCADGSSCINSRYRCDGVYDCRDNSDEAGC-----PTRPP 47
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
0.319 0.137 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,188,151
Number of Sequences: 62578
Number of extensions: 857350
Number of successful extensions: 1532
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1488
Number of HSP's gapped (non-prelim): 49
length of query: 563
length of database: 14,973,337
effective HSP length: 104
effective length of query: 459
effective length of database: 8,465,225
effective search space: 3885538275
effective search space used: 3885538275
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)