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= 006786
(631 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3P5C|L Chain L, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
Length = 440
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 37/78 (47%), Gaps = 13/78 (16%)
Query: 472 GPGKCKINNGGCWHESKDGHTYSACLDSENG-KCQCPPGFKGDGVKSCVDIDECKERKAC 530
G +C NNGGC H C D + G +C CP GF+ + C DIDEC++ C
Sbjct: 39 GTNECLDNNGGCSH---------VCNDLKIGYECLCPDGFQLVAQRRCEDIDECQDPDTC 89
Query: 531 QCSECSCKDTWGSYECTC 548
C + G Y+C C
Sbjct: 90 S---QLCVNLEGGYKCQC 104
Score = 37.4 bits (85), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 42/96 (43%), Gaps = 26/96 (27%)
Query: 420 TNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYSHCEVSGPGKCKIN 479
TNECLDNNGGC C D G C CP DG Q CE I+
Sbjct: 40 TNECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQLVAQ--RRCE-------DID 81
Query: 480 NGGCWHESKDGHTYS-ACLDSENG-KCQCPPGFKGD 513
E +D T S C++ E G KCQC GF+ D
Sbjct: 82 ------ECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 111
>pdb|3P5B|L Chain L, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
Length = 400
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 36/75 (48%), Gaps = 13/75 (17%)
Query: 475 KCKINNGGCWHESKDGHTYSACLDSENG-KCQCPPGFKGDGVKSCVDIDECKERKACQCS 533
+C NNGGC H C D + G +C CP GF+ + C DIDEC++ C
Sbjct: 2 ECLDNNGGCSH---------VCNDLKIGYECLCPDGFQLVAQRRCEDIDECQDPDTC--- 49
Query: 534 ECSCKDTWGSYECTC 548
C + G Y+C C
Sbjct: 50 SQLCVNLEGGYKCQC 64
Score = 36.2 bits (82), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 41/95 (43%), Gaps = 26/95 (27%)
Query: 421 NECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYSHCEVSGPGKCKINN 480
NECLDNNGGC C D G C CP DG Q CE I+
Sbjct: 1 NECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQLVAQ--RRCE-------DID- 41
Query: 481 GGCWHESKDGHTYS-ACLDSENG-KCQCPPGFKGD 513
E +D T S C++ E G KCQC GF+ D
Sbjct: 42 -----ECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 71
>pdb|2W2M|E Chain E, Wt Pcsk9-Deltac Bound To Wt Egf-A Of Ldlr
pdb|2W2O|E Chain E, Pcsk9-deltac D374y Mutant Bound To Wt Egf-a Of Ldlr
pdb|2W2P|E Chain E, Pcsk9-Deltac D374a Mutant Bound To Wt Egf-A Of Ldlr
pdb|2W2Q|E Chain E, Pcsk9-Deltac D374h Mutant Bound To Wt Egf-A Of Ldlr
Length = 107
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 42/96 (43%), Gaps = 18/96 (18%)
Query: 453 PLVDGVQFKGDGYSHCEVSGPGKCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFKG 512
P + + F+G G +C NNGGC H D CL CP GF+
Sbjct: 16 PTTENLYFQG-------AMGTNECLDNNGGCSHVCNDLKIGYECL--------CPDGFQL 60
Query: 513 DGVKSCVDIDECKERKACQCSECSCKDTWGSYECTC 548
+ C DIDEC++ CS+ C + G Y+C C
Sbjct: 61 VAQRRCEDIDECQDPDT--CSQ-LCVNLEGGYKCQC 93
Score = 36.6 bits (83), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 39/114 (34%), Positives = 47/114 (41%), Gaps = 26/114 (22%)
Query: 402 SGFEETTEPAVCLSGDVETNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFK 461
S ++ T + G + TNECLDNNGGC C D G C CP DG Q
Sbjct: 11 SDYDIPTTENLYFQGAMGTNECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQLV 61
Query: 462 GDGYSHCEVSGPGKCKINNGGCWHESKDGHTYSA-CLDSENG-KCQCPPGFKGD 513
CE E +D T S C++ E G KCQC GF+ D
Sbjct: 62 AQ--RRCED-------------IDECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 100
>pdb|3M0C|C Chain C, The X-Ray Crystal Structure Of Pcsk9 In Complex With The
Ldl Receptor
Length = 791
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 34/77 (44%), Gaps = 11/77 (14%)
Query: 472 GPGKCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFKGDGVKSCVDIDECKERKACQ 531
G +C NNGGC H D CL CP GF+ + C DIDEC++ C
Sbjct: 311 GTNECLDNNGGCSHVCNDLKIGYECL--------CPDGFQLVAQRRCEDIDECQDPDTCS 362
Query: 532 CSECSCKDTWGSYECTC 548
C + G Y+C C
Sbjct: 363 ---QLCVNLEGGYKCQC 376
Score = 35.4 bits (80), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 42/96 (43%), Gaps = 26/96 (27%)
Query: 420 TNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYSHCEVSGPGKCKIN 479
TNECLDNNGGC C D G C CP DG Q CE I+
Sbjct: 312 TNECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQLVAQ--RRCE-------DID 353
Query: 480 NGGCWHESKDGHTYSA-CLDSENG-KCQCPPGFKGD 513
E +D T S C++ E G KCQC GF+ D
Sbjct: 354 ------ECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 383
>pdb|1N7D|A Chain A, Extracellular Domain Of The Ldl Receptor
Length = 699
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 34/77 (44%), Gaps = 11/77 (14%)
Query: 472 GPGKCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFKGDGVKSCVDIDECKERKACQ 531
G +C NNGGC H D CL CP GF+ + C DIDEC++ C
Sbjct: 293 GTNECLDNNGGCSHVCNDLKIGYECL--------CPDGFQLVAQRRCEDIDECQDPDTCS 344
Query: 532 CSECSCKDTWGSYECTC 548
C + G Y+C C
Sbjct: 345 ---QLCVNLEGGYKCQC 358
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 42/96 (43%), Gaps = 26/96 (27%)
Query: 420 TNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYSHCEVSGPGKCKIN 479
TNECLDNNGGC C D G C CP DG Q CE I+
Sbjct: 294 TNECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQLVAQ--RRCE-------DID 335
Query: 480 NGGCWHESKDGHTYSA-CLDSENG-KCQCPPGFKGD 513
E +D T S C++ E G KCQC GF+ D
Sbjct: 336 ------ECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 365
>pdb|2W2N|E Chain E, Wt Pcsk9-Deltac Bound To Egf-A H306y Mutant Of Ldlr
Length = 107
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 42/96 (43%), Gaps = 18/96 (18%)
Query: 453 PLVDGVQFKGDGYSHCEVSGPGKCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFKG 512
P + + F+G G +C NNGGC + D CL CP GF+
Sbjct: 16 PTTENLYFQG-------AMGTNECLDNNGGCSYVCNDLKIGYECL--------CPDGFQL 60
Query: 513 DGVKSCVDIDECKERKACQCSECSCKDTWGSYECTC 548
+ C DIDEC++ CS+ C + G Y+C C
Sbjct: 61 VAQRRCEDIDECQDPDT--CSQ-LCVNLEGGYKCQC 93
Score = 36.2 bits (82), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 39/114 (34%), Positives = 47/114 (41%), Gaps = 26/114 (22%)
Query: 402 SGFEETTEPAVCLSGDVETNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFK 461
S ++ T + G + TNECLDNNGGC C D G C CP DG Q
Sbjct: 11 SDYDIPTTENLYFQGAMGTNECLDNNGGC-------SYVCNDLKIGYECLCP--DGFQLV 61
Query: 462 GDGYSHCEVSGPGKCKINNGGCWHESKDGHTYSA-CLDSENG-KCQCPPGFKGD 513
CE E +D T S C++ E G KCQC GF+ D
Sbjct: 62 AQ--RRCED-------------IDECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 100
>pdb|3BPS|E Chain E, Pcsk9:egf-a Complex
pdb|3GCX|E Chain E, Pcsk9:egfa (Ph 7.4)
Length = 83
Score = 38.1 bits (87), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 36/77 (46%), Gaps = 11/77 (14%)
Query: 472 GPGKCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFKGDGVKSCVDIDECKERKACQ 531
G +C NNGGC H D CL CP GF+ + C DIDEC++
Sbjct: 4 GTNECLDNNGGCSHVCNDLKIGYECL--------CPDGFQLVAQRRCEDIDECQDPDT-- 53
Query: 532 CSECSCKDTWGSYECTC 548
CS+ C + G Y+C C
Sbjct: 54 CSQ-LCVNLEGGYKCQC 69
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 37/100 (37%), Positives = 42/100 (42%), Gaps = 26/100 (26%)
Query: 416 GDVETNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYSHCEVSGPGK 475
G + TNECLDNNGGC C D G C CP DG Q CE
Sbjct: 1 GAMGTNECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQLVAQ--RRCED----- 44
Query: 476 CKINNGGCWHESKDGHTYSA-CLDSENG-KCQCPPGFKGD 513
E +D T S C++ E G KCQC GF+ D
Sbjct: 45 --------IDECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 76
>pdb|1HZ8|A Chain A, Solution Structure And Backbone Dynamics Of A Concatemer
Of Egf-Homology Modules Of The Human Low Density
Lipoprotein Receptor
pdb|1I0U|A Chain A, Solution Structure And Backbone Dynamics Of A Concatemer
Of Egf-Homology Modules Of The Human Low Density
Lipoprotein Receptor
Length = 82
Score = 37.0 bits (84), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 35/74 (47%), Gaps = 11/74 (14%)
Query: 475 KCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFKGDGVKSCVDIDECKERKACQCSE 534
+C NNGGC H D CL CP GF+ + C DIDEC++ CS+
Sbjct: 4 ECLDNNGGCSHVCNDLKIGYECL--------CPDGFQLVAQRRCEDIDECQDPDT--CSQ 53
Query: 535 CSCKDTWGSYECTC 548
C + G Y+C C
Sbjct: 54 -LCVNLEGGYKCQC 66
Score = 34.3 bits (77), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 40/96 (41%), Gaps = 26/96 (27%)
Query: 420 TNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYSHCEVSGPGKCKIN 479
TNECLDNNGGC C D G C CP DG Q CE
Sbjct: 2 TNECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQLVAQ--RRCED--------- 41
Query: 480 NGGCWHESKDGHTYSA-CLDSENG-KCQCPPGFKGD 513
E +D T S C++ E G KCQC GF+ D
Sbjct: 42 ----IDECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 73
>pdb|1HJ7|A Chain A, Nmr Study Of A Pair Of Ldl Receptor Ca2+ Binding Epidermal
Growth Factor-Like Domains, 20 Structures
Length = 80
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 35/74 (47%), Gaps = 11/74 (14%)
Query: 475 KCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFKGDGVKSCVDIDECKERKACQCSE 534
+C NNGGC H D CL CP GF+ + C DIDEC++ CS+
Sbjct: 4 ECLDNNGGCSHVCNDLKIGYECL--------CPDGFQLVAQRRCEDIDECQDPDT--CSQ 53
Query: 535 CSCKDTWGSYECTC 548
C + G Y+C C
Sbjct: 54 -LCVNLEGGYKCQC 66
Score = 33.5 bits (75), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 40/96 (41%), Gaps = 26/96 (27%)
Query: 420 TNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYSHCEVSGPGKCKIN 479
TNECLDNNGGC C D G C CP DG Q CE
Sbjct: 2 TNECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQLVAQ--RRCED--------- 41
Query: 480 NGGCWHESKDGHTYSA-CLDSENG-KCQCPPGFKGD 513
E +D T S C++ E G KCQC GF+ D
Sbjct: 42 ----IDECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 73
>pdb|3GCW|E Chain E, Pcsk9:egfa(H306y)
Length = 83
Score = 35.8 bits (81), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 36/77 (46%), Gaps = 11/77 (14%)
Query: 472 GPGKCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFKGDGVKSCVDIDECKERKACQ 531
G +C NNGGC + D CL CP GF+ + C DIDEC++
Sbjct: 4 GTNECLDNNGGCSYVCNDLKIGYECL--------CPDGFQLVAQRRCEDIDECQDPDT-- 53
Query: 532 CSECSCKDTWGSYECTC 548
CS+ C + G Y+C C
Sbjct: 54 CSQ-LCVNLEGGYKCQC 69
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 37/100 (37%), Positives = 42/100 (42%), Gaps = 26/100 (26%)
Query: 416 GDVETNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYSHCEVSGPGK 475
G + TNECLDNNGGC C D G C CP DG Q CE
Sbjct: 1 GAMGTNECLDNNGGCS-------YVCNDLKIGYECLCP--DGFQLVAQ--RRCED----- 44
Query: 476 CKINNGGCWHESKDGHTYSA-CLDSENG-KCQCPPGFKGD 513
E +D T S C++ E G KCQC GF+ D
Sbjct: 45 --------IDECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 76
>pdb|3EIF|A Chain A, 1.9 Angstrom Crystal Structure Of The Active Form Of The
C5a Peptidase From Streptococcus Pyogenes (Scpa)
Length = 936
Score = 35.8 bits (81), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 11/71 (15%)
Query: 98 FVLVDRGDCFFALKVWNAQKAGASAVLVADDIEEALITMDTPEEDISSAKYIENITIPSA 157
L++RGD F K+ NA+KAGA VL+ D+ ++ ++ P D +P+A
Sbjct: 292 IALIERGDIDFKDKIANAKKAGAVGVLIYDNQDKGF-PIELPNVD----------QMPAA 340
Query: 158 LIDKSFGETLK 168
I + G LK
Sbjct: 341 FISRKDGLLLK 351
>pdb|3V65|B Chain B, Crystal Structure Of Agrin And Lrp4 Complex
pdb|3V65|D Chain D, Crystal Structure Of Agrin And Lrp4 Complex
Length = 386
Score = 34.3 bits (77), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 42/93 (45%), Gaps = 14/93 (15%)
Query: 471 SGPGKCKINNGGCWHESKDGHTYSACLDSENGKCQCPPGFK--GDGVKSCVDIDECKERK 528
+G C +NNGGC + + + +C C G++ DG ++C D++EC E
Sbjct: 1 TGEENCNVNNGGCAQKCQ--------MIRGAVQCTCHTGYRLTEDG-RTCQDVNECAEEG 51
Query: 529 ACQCSECSCKDTWGSYECTCSGDLLYIRDHDTC 561
C C ++ G+++C C D +C
Sbjct: 52 YC---SQGCTNSEGAFQCWCEAGYELRPDRRSC 81
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 10/50 (20%)
Query: 471 SGPGKCKINNGGCWHESKDGHTYSACLDS-ENGKCQCPPGFKGDGVKSCV 519
+G +C NNGGC H CL S +N C CP GF+ +C
Sbjct: 345 AGKNRCGDNNGGCTH---------LCLPSGQNYTCACPTGFRKINSHACA 385
>pdb|3DEM|A Chain A, Cub1-egf-cub2 Domain Of Human Masp-1/3
pdb|3DEM|B Chain B, Cub1-egf-cub2 Domain Of Human Masp-1/3
Length = 278
Score = 32.3 bits (72), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 513 DGVKSCVDIDECKERKACQCS-ECSCKDTWGSYECTCSGDLLYIRDHDTC 561
D VD+DECKER+ + S + C + G Y C+C + D+ TC
Sbjct: 113 DAHYMAVDVDECKEREDEELSCDHYCHNYIGGYYCSCRFGYILHTDNRTC 162
>pdb|4AQB|A Chain A, Mbl-Ficolin Associated Protein-1, Map-1 Aka Map44
Length = 361
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 513 DGVKSCVDIDECKERKACQCS-ECSCKDTWGSYECTCSGDLLYIRDHDTC 561
D VD+DECKER+ + S + C + G Y C+C + D+ TC
Sbjct: 113 DAHYMAVDVDECKEREDEELSCDHYCHNYIGGYYCSCRFGYILHTDNRTC 162
>pdb|1EMN|A Chain A, Nmr Study Of A Pair Of Fibrillin Ca2+ Binding Epidermal
Growth Factor-Like Domains, Minimized Average Structure
pdb|1EMO|A Chain A, Nmr Study Of A Pair Of Fibrillin Ca2+ Binding Epidermal
Growth Factor-Like Domains, 22 Structures
Length = 82
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 493 YSACLDSENG-KCQCPPGFKGDGVKSCVDIDECKERKACQCSECSCKDTWGSYECTC 548
+ C++++ +C+CP G+ G CVD DEC C +CK+ G +ECTC
Sbjct: 16 HGQCINTDGSYRCECPFGYILAG-NECVDTDECSVGNPC--GNGTCKNVIGGFECTC 69
>pdb|2Q14|A Chain A, Crystal Structure Of Phosphohydrolase (Bt4208) From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.20 A
Resolution
pdb|2Q14|B Chain B, Crystal Structure Of Phosphohydrolase (Bt4208) From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.20 A
Resolution
pdb|2Q14|C Chain C, Crystal Structure Of Phosphohydrolase (Bt4208) From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.20 A
Resolution
pdb|2Q14|D Chain D, Crystal Structure Of Phosphohydrolase (Bt4208) From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.20 A
Resolution
pdb|2Q14|E Chain E, Crystal Structure Of Phosphohydrolase (Bt4208) From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.20 A
Resolution
pdb|2Q14|F Chain F, Crystal Structure Of Phosphohydrolase (Bt4208) From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.20 A
Resolution
pdb|2Q14|G Chain G, Crystal Structure Of Phosphohydrolase (Bt4208) From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.20 A
Resolution
pdb|2Q14|H Chain H, Crystal Structure Of Phosphohydrolase (Bt4208) From
Bacteroides Thetaiotaomicron Vpi-5482 At 2.20 A
Resolution
Length = 410
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 88 FKAKPGALPNFVLVDRGDCFFALKVWNAQKAGASAVLVADDIEEALITMDTPEEDISSAK 147
F P L NF+ +D D + ALKVW+ + L I + ++ E I +
Sbjct: 271 FHNNPDCLENFIQLDDNDIWTALKVWSNHPDKVLSTLSLGXINRNIFKVENSAEPIGEDR 330
Query: 148 YIENITIPSALIDKSFGETLKKA 170
I+ +T+ I + G TL +A
Sbjct: 331 -IKELTLQ---ISQQLGITLSEA 349
>pdb|3V64|C Chain C, Crystal Structure Of Agrin And Lrp4
pdb|3V64|D Chain D, Crystal Structure Of Agrin And Lrp4
Length = 349
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 38/92 (41%), Gaps = 14/92 (15%)
Query: 431 WQDKTANVTACKDTFRGRVCECPLVDGVQFKGDGYS---HCEVSGPGKCKINNGGCWHES 487
W D + F G+ E + + + F D ++ + +G +C NNGGC H
Sbjct: 260 WTDWHTKSINSANKFTGKNQEI-IRNKLHFPMDIHTLHPQRQPAGKNRCGDNNGGCTH-- 316
Query: 488 KDGHTYSACLDS-ENGKCQCPPGFKGDGVKSC 518
CL S +N C CP GF+ +C
Sbjct: 317 -------LCLPSGQNYTCACPTGFRKINSHAC 341
>pdb|1Z6C|A Chain A, Solution Structure Of An Egf Pair (Egf34) From Vitamin K-
Dependent Protein S
Length = 87
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 503 KCQCPPGFKGD-GVKSCVDIDECKERKACQCSECSCKDTWGSYECTCSG 550
+C+CP G++ + KSC DIDEC E Q C + G Y C C G
Sbjct: 26 ECECPEGYRYNLKSKSCEDIDECSENMCAQ----LCVNYPGGYTCYCDG 70
>pdb|3LOH|E Chain E, Structure Of The Insulin Receptor Ectodomain, Including Ct
P
Length = 917
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 48/179 (26%), Positives = 63/179 (35%), Gaps = 13/179 (7%)
Query: 64 MAGAVTYPKENRKGCREFGDFGISFKAKP--GALPNF----VLVDRGDCFFALKVWNAQK 117
+ V P+ +RK R GD G P A PN V + KV N +
Sbjct: 709 LHNVVFVPRPSRKR-RSLGDVGNHGNNVPTVAAFPNTSSTSVPTSPEEHRPFEKVVNKES 767
Query: 118 AGASAV--LVADDIEEALITMDTPEEDISSAKYIENITIPSALIDKSFGETLKKALSGGE 175
S + IE DTPEE S A Y+ T+P A D G +
Sbjct: 768 LVISGLRHFTGYRIELQACNQDTPEERCSVAAYVSARTMPEAKADDIVGPVTHEIFENNV 827
Query: 176 MVNVNLDWREAVPHPDDRVEYEL-WTNSNDECGVKCDMLMAFVKEFRGPAQILEKGGYT 233
V+L W+E V YE+ + DE CD F E + L G Y+
Sbjct: 828 ---VHLMWQEPKEPNGLIVLYEVSYRRYGDEELHLCDTRKHFALERGCRLRGLSPGNYS 883
>pdb|1XFE|A Chain A, Solution Structure Of The La7-Egfa Pair From The Ldl
Receptor
Length = 83
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 20/41 (48%), Gaps = 9/41 (21%)
Query: 420 TNECLDNNGGCWQDKTANVTACKDTFRGRVCECPLVDGVQF 460
TNECLDNNGGC C D G C CP DG Q
Sbjct: 45 TNECLDNNGGCSH-------VCNDLKIGYECLCP--DGFQL 76
>pdb|2DTG|E Chain E, Insulin Receptor (Ir) Ectodomain In Complex With Fab's
Length = 897
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 40/106 (37%), Gaps = 4/106 (3%)
Query: 129 IEEALITMDTPEEDISSAKYIENITIPSALIDKSFGETLKKALSGGEMVNVNLDWREAVP 188
IE DTPEE S A Y+ T+P A D G + V+L W+E
Sbjct: 762 IELQACNQDTPEERCSVAAYVSARTMPEAKADDIVGPVTHEIFENNV---VHLMWQEPKE 818
Query: 189 HPDDRVEYEL-WTNSNDECGVKCDMLMAFVKEFRGPAQILEKGGYT 233
V YE+ + DE CD F E + L G Y+
Sbjct: 819 PNGLIVLYEVSYRRYGDEELHLCDTRKHFALERGCRLRGLSPGNYS 864
>pdb|3GIS|X Chain X, Crystal Structure Of Na-Free Thrombin In Complex With
Thrombomodulin
pdb|3GIS|Y Chain Y, Crystal Structure Of Na-Free Thrombin In Complex With
Thrombomodulin
pdb|3GIS|Z Chain Z, Crystal Structure Of Na-Free Thrombin In Complex With
Thrombomodulin
Length = 121
Score = 30.0 bits (66), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 496 CLDSENGKCQCPPGFKGDGVKSCVDIDECKERKACQCSECSCKDTWGSYECTCSGD 551
C + C+CP G+ D C DIDEC+ C C + G++EC C D
Sbjct: 55 CDPNTQASCECPEGYILDDGFICTDIDECENGGFCS---GVCHNLPGTFECICGPD 107
>pdb|1DX5|I Chain I, Crystal Structure Of The Thrombin-Thrombomodulin Complex
pdb|1DX5|J Chain J, Crystal Structure Of The Thrombin-Thrombomodulin Complex
pdb|1DX5|K Chain K, Crystal Structure Of The Thrombin-Thrombomodulin Complex
pdb|1DX5|L Chain L, Crystal Structure Of The Thrombin-Thrombomodulin Complex
Length = 118
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 496 CLDSENGKCQCPPGFKGDGVKSCVDIDECKERKACQCSECSCKDTWGSYECTCSGD 551
C + C+CP G+ D C DIDEC+ C C + G++EC C D
Sbjct: 55 CDPNTQASCECPEGYILDDGFICTDIDECENGGFCS---GVCHNLPGTFECICGPD 107
>pdb|1LMJ|A Chain A, Nmr Study Of The Fibrillin-1 Cbegf12-13 Pair Of Ca2+
Binding Epidermal Growth Factor-like Domains
Length = 86
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 503 KCQCPPGFKGD--GVKSCVDIDECKERKACQCSECSCKDTWGSYECTC 548
+C+C G++ +K+C+DIDEC +R C C +T GSY C C
Sbjct: 26 ECKCDEGYESGFMMMKNCMDIDEC-QRDPLLCRGGVCHNTEGSYRCEC 72
>pdb|2GY5|A Chain A, Tie2 Ligand-Binding Domain Crystal Structure
pdb|2GY7|B Chain B, Angiopoietin-2TIE2 COMPLEX CRYSTAL STRUCTURE
Length = 423
Score = 29.6 bits (65), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 21/77 (27%)
Query: 491 HTYSACLDS-----ENGKCQCPPGFKGDGVKSCVDID----ECKERKACQ--CSE----- 534
H +AC+++ + G+C CPPGF G + ++ CKER + Q C
Sbjct: 200 HLCTACMNNGVCHEDTGECICPPGFMGRTCEKACELHTFGRTCKERCSGQEGCKSYVFCL 259
Query: 535 -----CSCKDTWGSYEC 546
CSC W +C
Sbjct: 260 PDPYGCSCATGWKGLQC 276
>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 = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 502 GKCQCPPGFKGDG------VKSCVDID--ECKERKACQCSECSCKDTW 541
GKC+C PGF+G + C++ EC R C+C+ C C +
Sbjct: 538 GKCRCHPGFEGSACQCERTTEGCLNPRRVECSGRGRCRCNVCECHSGY 585
>pdb|3KW3|A Chain A, Crystal Structure Of Alanine Racemase From Bartonella
Henselae With Covalently Bound Pyridoxal Phosphate
pdb|3KW3|B Chain B, Crystal Structure Of Alanine Racemase From Bartonella
Henselae With Covalently Bound Pyridoxal Phosphate
Length = 376
Score = 29.3 bits (64), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 306 WDYVTDFQIRCPMKDKKYNKECAAAV-IKSLGLDAKKIEKCMGDP 349
W + D+Q C K+KK+ + LGLD K+++K + +P
Sbjct: 121 WSTIEDWQTLCQKKNKKFPAIIQVDTNMSRLGLDKKELQKLIKNP 165
>pdb|1MEJ|B Chain B, Human Glycinamide Ribonucleotide Transformylase Domain At
Ph 8.5
pdb|1MEJ|A Chain A, Human Glycinamide Ribonucleotide Transformylase Domain At
Ph 8.5
pdb|1MEJ|C Chain C, Human Glycinamide Ribonucleotide Transformylase Domain At
Ph 8.5
pdb|1MEN|A Chain A, Complex Structure Of Human Gar Tfase And Substrate
Beta-Gar
pdb|1MEN|B Chain B, Complex Structure Of Human Gar Tfase And Substrate
Beta-Gar
pdb|1MEN|C Chain C, Complex Structure Of Human Gar Tfase And Substrate
Beta-Gar
Length = 223
Score = 28.9 bits (63), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 46/98 (46%), Gaps = 8/98 (8%)
Query: 321 KKYNKECAAAVIKSLGLDAKKIEKCMGDPDADADNPVLKEEQDAQVG--KGSRGDVTILP 378
++ + A +I G + + + +P++ A ++ + A G K R + P
Sbjct: 7 QQMGRILVAVLISGTGSNLQALIDSTREPNSSAQIDIVISNKAAVAGLDKAERAGI---P 63
Query: 379 TLVVNNRQYRGKLEKGAVLKAICSGFEETTEPAVCLSG 416
T V+N++ Y+ ++E + + + EE + VCL+G
Sbjct: 64 TRVINHKLYKNRVEFDSAIDLV---LEEFSIDIVCLAG 98
>pdb|1ZLX|A Chain A, The Apo Structure Of Human Glycinamide Ribonucleotide
Transformylase
Length = 203
Score = 28.9 bits (63), Expect = 9.0, Method: Composition-based stats.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 329 AAVIKSLGLDAKKIEKCMGDPDADADNPVLKEEQDAQVG--KGSRGDVTILPTLVVNNRQ 386
A +I G + + + +P++ A ++ + A G K R + PT V+N++
Sbjct: 4 AVLISGTGSNLQALIDSTREPNSSAQIDIVISNKAAVAGLDKAERAGI---PTRVINHKL 60
Query: 387 YRGKLEKGAVLKAICSGFEETTEPAVCLSG 416
Y+ ++E + + + EE + VCL+G
Sbjct: 61 YKNRVEFDSAIDLV---LEEFSIDIVCLAG 87
>pdb|1ZLY|A Chain A, The Structure Of Human Glycinamide Ribonucleotide
Transformylase In Complex With Alpha,beta-n-
(hydroxyacetyl)-d-ribofuranosylamine And 10-formyl-5,8,
Dideazafolate
Length = 203
Score = 28.9 bits (63), Expect = 9.0, Method: Composition-based stats.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 329 AAVIKSLGLDAKKIEKCMGDPDADADNPVLKEEQDAQVG--KGSRGDVTILPTLVVNNRQ 386
A +I G + + + +P++ A ++ + A G K R + PT V+N++
Sbjct: 4 AVLISGTGSNLQALIDSTREPNSSAQIDIVISNKAAVAGLDKAERAGI---PTRVINHKL 60
Query: 387 YRGKLEKGAVLKAICSGFEETTEPAVCLSG 416
Y+ ++E + + + EE + VCL+G
Sbjct: 61 YKNRVEFDSAIDLV---LEEFSIDIVCLAG 87
>pdb|1MEO|A Chain A, Human Glycinamide Ribonucleotide Transformylase At Ph 4.2
pdb|1NJS|A Chain A, Human Gar Tfase In Complex With Hydrolyzed Form Of 10-
Trifluoroacetyl-5,10-Dideaza-Acyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1NJS|B Chain B, Human Gar Tfase In Complex With Hydrolyzed Form Of 10-
Trifluoroacetyl-5,10-Dideaza-Acyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1RBM|A Chain A, Human Gar Tfase Complex Structure With Polyglutamated 10-
(Trifluoroacetyl)-5,10-Dideazaacyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1RBM|B Chain B, Human Gar Tfase Complex Structure With Polyglutamated 10-
(Trifluoroacetyl)-5,10-Dideazaacyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1RBQ|A Chain A, Human Gar Tfase Complex Structure With
10-(Trifluoroacetyl)-
5,10-Dideazaacyclic-5,6,7,8-Tetrahydrofolic Acid
pdb|1RBQ|B Chain B, Human Gar Tfase Complex Structure With
10-(Trifluoroacetyl)-
5,10-Dideazaacyclic-5,6,7,8-Tetrahydrofolic Acid
pdb|1RBQ|C Chain C, Human Gar Tfase Complex Structure With
10-(Trifluoroacetyl)-
5,10-Dideazaacyclic-5,6,7,8-Tetrahydrofolic Acid
pdb|1RBQ|D Chain D, Human Gar Tfase Complex Structure With
10-(Trifluoroacetyl)-
5,10-Dideazaacyclic-5,6,7,8-Tetrahydrofolic Acid
pdb|1RBY|A Chain A, Human Gar Tfase Complex Structure With
10-(trifluoroacetyl)-
5,10-dideazaacyclic-5,6,7,8-tetrahydrofolic Acid And
Substrate Beta-gar
pdb|1RBY|B Chain B, Human Gar Tfase Complex Structure With
10-(trifluoroacetyl)-
5,10-dideazaacyclic-5,6,7,8-tetrahydrofolic Acid And
Substrate Beta-gar
pdb|1RBY|C Chain C, Human Gar Tfase Complex Structure With
10-(trifluoroacetyl)-
5,10-dideazaacyclic-5,6,7,8-tetrahydrofolic Acid And
Substrate Beta-gar
pdb|1RBY|D Chain D, Human Gar Tfase Complex Structure With
10-(trifluoroacetyl)-
5,10-dideazaacyclic-5,6,7,8-tetrahydrofolic Acid And
Substrate Beta-gar
pdb|1RBZ|A Chain A, Human Gar Tfase Complex Structure With Polyglutamated 10-
(Trifluoroacetyl)-5,10-Dideazaacyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1RBZ|B Chain B, Human Gar Tfase Complex Structure With Polyglutamated 10-
(Trifluoroacetyl)-5,10-Dideazaacyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1RC0|A Chain A, Human Gar Tfase Complex Structure With Polyglutamated 10-
(trifluoroacetyl)-5,10-dideazaacyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1RC0|B Chain B, Human Gar Tfase Complex Structure With Polyglutamated 10-
(trifluoroacetyl)-5,10-dideazaacyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1RC1|A Chain A, Human Gar Tfase Complex Structure With Polyglutamated 10-
(Trifluoroacetyl)-5,10-Dideazaacyclic-5,6,7,8-
Tetrahydrofolic Acid
pdb|1RC1|B Chain B, Human Gar Tfase Complex Structure With Polyglutamated 10-
(Trifluoroacetyl)-5,10-Dideazaacyclic-5,6,7,8-
Tetrahydrofolic Acid
Length = 209
Score = 28.9 bits (63), Expect = 9.0, Method: Composition-based stats.
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 329 AAVIKSLGLDAKKIEKCMGDPDADADNPVLKEEQDAQVG--KGSRGDVTILPTLVVNNRQ 386
A +I G + + + +P++ A ++ + A G K R + PT V+N++
Sbjct: 4 AVLISGTGSNLQALIDSTREPNSSAQIDIVISNKAAVAGLDKAERAGI---PTRVINHKL 60
Query: 387 YRGKLEKGAVLKAICSGFEETTEPAVCLSG 416
Y+ ++E + + + EE + VCL+G
Sbjct: 61 YKNRVEFDSAIDLV---LEEFSIDIVCLAG 87
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
0.317 0.134 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,949,097
Number of Sequences: 62578
Number of extensions: 890046
Number of successful extensions: 1929
Number of sequences better than 100.0: 83
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 57
Number of HSP's that attempted gapping in prelim test: 1796
Number of HSP's gapped (non-prelim): 134
length of query: 631
length of database: 14,973,337
effective HSP length: 105
effective length of query: 526
effective length of database: 8,402,647
effective search space: 4419792322
effective search space used: 4419792322
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)