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= psy5836
(66 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LTF|A Chain A, Crystal Structure Of The Drosophila Epidermal Growth
Factor Receptor Ectodomain In Complex With Spitz
pdb|3LTF|C Chain C, Crystal Structure Of The Drosophila Epidermal Growth
Factor Receptor Ectodomain In Complex With Spitz
pdb|3LTG|A Chain A, Crystal Structure Of The Drosophila Epidermal Growth
Factor Receptor Ectodomain Complexed With A Low Affinity
Spitz Mutant
pdb|3LTG|C Chain C, Crystal Structure Of The Drosophila Epidermal Growth
Factor Receptor Ectodomain Complexed With A Low Affinity
Spitz Mutant
Length = 601
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 6/66 (9%)
Query: 3 TCVSRCP--PRSFPNQGGVCWPCHESCETCAGAGQDSCLTCAPAHLRVTDLAICLQQCPE 60
TC++ C ++ C CH C TC GAG D C C + V D C+ +CP+
Sbjct: 508 TCIADCGYISNAYKFDNRTCKICHPECRTCNGAGADHCQEC----VHVRDGQHCVSECPK 563
Query: 61 GYFESK 66
+ +
Sbjct: 564 NKYNDR 569
Score = 30.0 bits (66), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 4 CVSRCPPRSFPNQGGVCWPCHESCETCAG 32
CVS CP + N GVC CH +C+ C G
Sbjct: 557 CVSECPKNKY-NDRGVCRECHATCDGCTG 584
>pdb|1M6B|A Chain A, Structure Of The Her3 (Erbb3) Extracellular Domain
pdb|1M6B|B Chain B, Structure Of The Her3 (Erbb3) Extracellular Domain
Length = 621
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 16/75 (21%)
Query: 3 TCVSRC-----PPRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDL 51
CV+ C PR F ++ C+ CH C+ TC G+G D+C C AH R D
Sbjct: 509 VCVTHCNFLNGEPREFAHEA-ECFSCHPECQPMEGTATCNGSGSDTCAQC--AHFR--DG 563
Query: 52 AICLQQCPEGYFESK 66
C+ CP G +K
Sbjct: 564 PHCVSSCPHGVLGAK 578
>pdb|3I2T|A Chain A, Crystal Structure Of The Unliganded Drosophila Epidermal
Growth Factor Receptor Ectodomain
Length = 551
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 3 TCVSRCP--PRSFPNQGGVCWPCHESCETCAGAGQDSCLTCA 42
TC++ C ++ C CH C TC GAG D C C
Sbjct: 508 TCIADCGYISNAYKFDNRTCKICHPECRTCNGAGADHCQECV 549
>pdb|1S78|A Chain A, Insights Into Erbb Signaling From The Structure Of The
Erbb2- Pertuzumab Complex
pdb|1S78|B Chain B, Insights Into Erbb Signaling From The Structure Of The
Erbb2- Pertuzumab Complex
pdb|3BE1|A Chain A, Dual Specific Bh1 Fab In Complex With The Extracellular
Domain Of Her2ERBB-2
pdb|3MZW|A Chain A, Her2 Extracelluar Region With Affinity Matured 3-Helix
Affibody Zher2:342
pdb|3N85|A Chain A, Crystallographic Trimer Of Her2 Extracellular Regions In
Complex With Tryptophan-Rich Antibody Fragment
Length = 624
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 11/58 (18%)
Query: 10 PRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDLAICLQQCPEG 61
PR + N C PCH C+ TC G D C+ CA D C+ +CP G
Sbjct: 529 PREYVN-ARHCLPCHPECQPQNGSVTCFGPEADQCVACA----HYKDPPFCVARCPSG 581
>pdb|1N8Z|C Chain C, Crystal Structure Of Extracellular Domain Of Human Her2
Complexed With Herceptin Fab
Length = 607
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 11/58 (18%)
Query: 10 PRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDLAICLQQCPEG 61
PR + N C PCH C+ TC G D C+ CA D C+ +CP G
Sbjct: 529 PREYVN-ARHCLPCHPECQPQNGSVTCFGPEADQCVACA----HYKDPPFCVARCPSG 581
>pdb|1N8Y|C Chain C, Crystal Structure Of The Extracellular Region Of Rat Her2
Length = 608
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 22/48 (45%), Gaps = 10/48 (20%)
Query: 20 CWPCHESC------ETCAGAGQDSCLTCAPAHLRVTDLAICLQQCPEG 61
C PCH C ETC G+ D C CA D + C+ +CP G
Sbjct: 539 CLPCHPECQPQNSSETCFGSEADQCAACA----HYKDSSSCVARCPSG 582
>pdb|1NQL|A Chain A, Structure Of The Extracellular Domain Of Human Epidermal
Growth Factor (egf) Receptor In An Inactive (low Ph)
Complex With Egf
Length = 624
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 29/71 (40%), Gaps = 16/71 (22%)
Query: 4 CVSRCP-----PRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDLA 52
CV +C PR F + C CH C TC G G D+C+ CA D
Sbjct: 511 CVDKCKLLEGEPREFV-ENSECIQCHPECLPQAMNITCTGRGPDNCIQCA----HYIDGP 565
Query: 53 ICLQQCPEGYF 63
C++ CP G
Sbjct: 566 HCVKTCPAGVM 576
>pdb|1YY9|A Chain A, Structure Of The Extracellular Domain Of The Epidermal
Growth Factor Receptor In Complex With The Fab Fragment
Of Cetuximab/erbitux/imc- C225
Length = 624
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 29/71 (40%), Gaps = 16/71 (22%)
Query: 4 CVSRCP-----PRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDLA 52
CV +C PR F + C CH C TC G G D+C+ CA D
Sbjct: 511 CVDKCKLLEGEPREFV-ENSECIQCHPECLPQAMNITCTGRGPDNCIQCA----HYIDGP 565
Query: 53 ICLQQCPEGYF 63
C++ CP G
Sbjct: 566 HCVKTCPAGVM 576
>pdb|3NJP|A Chain A, The Extracellular And Transmembrane Domain Interfaces In
Epidermal Growth Factor Receptor Signaling
pdb|3NJP|B Chain B, The Extracellular And Transmembrane Domain Interfaces In
Epidermal Growth Factor Receptor Signaling
Length = 614
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 29/71 (40%), Gaps = 16/71 (22%)
Query: 4 CVSRCP-----PRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDLA 52
CV +C PR F + C CH C TC G G D+C+ CA D
Sbjct: 511 CVDKCKLLEGEPREFV-ENSECIQCHPECLPQAMNITCTGRGPDNCIQCA----HYIDGP 565
Query: 53 ICLQQCPEGYF 63
C++ CP G
Sbjct: 566 HCVKTCPAGVM 576
>pdb|1IVO|A Chain A, Crystal Structure Of The Complex Of Human Epidermal Growth
Factor And Receptor Extracellular Domains.
pdb|1IVO|B Chain B, Crystal Structure Of The Complex Of Human Epidermal Growth
Factor And Receptor Extracellular Domains
Length = 622
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 29/71 (40%), Gaps = 16/71 (22%)
Query: 4 CVSRC-----PPRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDLA 52
CV +C PR F + C CH C TC G G D+C+ CA D
Sbjct: 511 CVDKCNLLEGEPREFV-ENSECIQCHPECLPQAMNITCTGRGPDNCIQCA----HYIDGP 565
Query: 53 ICLQQCPEGYF 63
C++ CP G
Sbjct: 566 HCVKTCPAGVM 576
>pdb|3B2V|A Chain A, Crystal Structure Of The Extracellular Region Of The
Epidermal Growth Factor Receptor In Complex With The Fab
Fragment Of Imc-11f8
Length = 624
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 29/71 (40%), Gaps = 16/71 (22%)
Query: 4 CVSRC-----PPRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDLA 52
CV +C PR F + C CH C TC G G D+C+ CA D
Sbjct: 511 CVDKCNLLEGEPREFV-ENSECIQCHPECLPQAMNITCTGRGPDNCIQCA----HYIDGP 565
Query: 53 ICLQQCPEGYF 63
C++ CP G
Sbjct: 566 HCVKTCPAGVM 576
>pdb|3QWQ|A Chain A, Crystal Structure Of The Extracellular Domain Of The
Epidermal Growth Factor Receptor In Complex With An
Adnectin
Length = 648
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 29/71 (40%), Gaps = 16/71 (22%)
Query: 4 CVSRC-----PPRSFPNQGGVCWPCHESCE------TCAGAGQDSCLTCAPAHLRVTDLA 52
CV +C PR F + C CH C TC G G D+C+ CA D
Sbjct: 535 CVDKCNLLEGEPREFV-ENSECIQCHPECLPQAMNITCTGRGPDNCIQCA----HYIDGP 589
Query: 53 ICLQQCPEGYF 63
C++ CP G
Sbjct: 590 HCVKTCPAGVM 600
>pdb|2AHX|A Chain A, Crystal Structure Of Erbb4HER4 EXTRACELLULAR DOMAIN
pdb|2AHX|B Chain B, Crystal Structure Of Erbb4HER4 EXTRACELLULAR DOMAIN
Length = 617
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 12/58 (20%)
Query: 11 RSFPNQGGVCWPCHESCE-------TCAGAGQDSCLTCAPAHLRVTDLAICLQQCPEG 61
R F N +C C CE TC G G D+C C +H + D C+++CP+G
Sbjct: 520 REFENDS-ICVECDPQCEKMEDGLLTCHGPGPDNCTKC--SHFK--DGPNCVEKCPDG 572
>pdb|3U9U|E Chain E, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
pdb|3U9U|F Chain F, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
Length = 625
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 12/58 (20%)
Query: 11 RSFPNQGGVCWPCHESCE-------TCAGAGQDSCLTCAPAHLRVTDLAICLQQCPEG 61
R F N +C C CE TC G G D+C C +H + D C+++CP+G
Sbjct: 519 REFENDS-ICVECDPQCEKMEDGLLTCHGPGPDNCTKC--SHFK--DGPNCVEKCPDG 571
>pdb|3U7U|A Chain A, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|B Chain B, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|C Chain C, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|D Chain D, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|E Chain E, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|F Chain F, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
Length = 615
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 12/58 (20%)
Query: 11 RSFPNQGGVCWPCHESCE-------TCAGAGQDSCLTCAPAHLRVTDLAICLQQCPEG 61
R F N +C C CE TC G G D+C C +H + D C+++CP+G
Sbjct: 519 REFENDS-ICVECDPQCEKMEDGLLTCHGPGPDNCTKC--SHFK--DGPNCVEKCPDG 571
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
0.324 0.136 0.501
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,125,560
Number of Sequences: 62578
Number of extensions: 70392
Number of successful extensions: 257
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 200
Number of HSP's gapped (non-prelim): 65
length of query: 66
length of database: 14,973,337
effective HSP length: 37
effective length of query: 29
effective length of database: 12,657,951
effective search space: 367080579
effective search space used: 367080579
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)