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= psy10378
(62 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3H8M|A Chain A, Sam Domain Of Human Ephrin Type-A Receptor 7 (Epha7)
pdb|3H8M|B Chain B, Sam Domain Of Human Ephrin Type-A Receptor 7 (Epha7)
Length = 90
Score = 70.1 bits (170), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 31/52 (59%), Positives = 41/52 (78%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQL 52
M RY DNF G +S+E+V R+T+ ++ +LGITLVGHQKKIM+SIQ MR Q+
Sbjct: 37 MERYKDNFTAAGYNSLESVARMTIEDVMSLGITLVGHQKKIMSSIQTMRAQM 88
>pdb|1UCV|A Chain A, Sterile Alpha Motif (Sam) Domain Of Ephrin Type-A
Receptor 8
Length = 81
Score = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 31/59 (52%), Positives = 41/59 (69%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLSANLSEG 59
M RY D+F GG SS+ V+R+ ++ ALGITL+GHQKKI+ SIQ MR QL++ G
Sbjct: 19 MGRYRDHFAAGGYSSLGMVLRMNAQDVRALGITLMGHQKKILGSIQTMRAQLTSTQGSG 77
>pdb|1B0X|A Chain A, The Crystal Structure Of An Eph Receptor Sam Domain
Reveals A Mechanism For Modular Dimerization
Length = 94
Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 26/52 (50%), Positives = 38/52 (73%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQL 52
M RY DNF G +++EAVV ++ +L +GIT + HQ KI++S+QAMRTQ+
Sbjct: 38 MDRYKDNFTAAGYTTLEAVVHMSQDDLARIGITAITHQNKILSSVQAMRTQM 89
>pdb|2EAO|A Chain A, Solution Structure Of The C-Terminal Sam-Domain Of Mouse
Ephrin Type-B Receptor 1 Precursor (Ec 2.7.1.112)
Length = 99
Score = 58.5 bits (140), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 26/53 (49%), Positives = 38/53 (71%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLS 53
M +Y D+F G +S++ V ++T +L +GITL GHQKKI+NSI +MR Q+S
Sbjct: 34 MVQYRDSFLTAGFTSLQLVTQMTSEDLLRIGITLAGHQKKILNSIHSMRVQIS 86
>pdb|1SGG|A Chain A, The Solution Structure Of Sam Domain From The Receptor
Tyrosine Kinase Ephb2, Nmr, 10 Structures
Length = 75
Score = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 39/53 (73%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLS 53
M++Y ++F G ++ + V ++TV ++ +G+TL GHQKKI+NSIQ MR Q++
Sbjct: 22 MSQYKESFASAGFTTFDIVSQMTVEDILRVGVTLAGHQKKILNSIQVMRAQMN 74
>pdb|3HIL|A Chain A, Sam Domain Of Human Ephrin Type-A Receptor 1 (Epha1)
pdb|3HIL|B Chain B, Sam Domain Of Human Ephrin Type-A Receptor 1 (Epha1)
pdb|3KKA|A Chain A, Co-Crystal Structure Of The Sam Domains Of Epha1 And
Epha2
pdb|3KKA|B Chain B, Co-Crystal Structure Of The Sam Domains Of Epha1 And
Epha2
Length = 82
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 32/48 (66%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAM 48
M RY+ +F G+ +ME V+ LT +L +GITL GHQK+I+ SIQ
Sbjct: 35 MKRYILHFHSAGLDTMECVLELTAEDLTQMGITLPGHQKRILCSIQGF 82
>pdb|1B4F|A Chain A, Oligomeric Structure Of The Human Ephb2 Receptor Sam
Domain
pdb|1B4F|B Chain B, Oligomeric Structure Of The Human Ephb2 Receptor Sam
Domain
pdb|1B4F|C Chain C, Oligomeric Structure Of The Human Ephb2 Receptor Sam
Domain
pdb|1B4F|D Chain D, Oligomeric Structure Of The Human Ephb2 Receptor Sam
Domain
pdb|1B4F|E Chain E, Oligomeric Structure Of The Human Ephb2 Receptor Sam
Domain
pdb|1B4F|F Chain F, Oligomeric Structure Of The Human Ephb2 Receptor Sam
Domain
pdb|1B4F|G Chain G, Oligomeric Structure Of The Human Ephb2 Receptor Sam
Domain
pdb|1B4F|H Chain H, Oligomeric Structure Of The Human Ephb2 Receptor Sam
Domain
pdb|1F0M|A Chain A, Monomeric Structure Of The Human Ephb2 Sam (Sterile
Alpha Motif) Domain
Length = 82
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 37/53 (69%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLS 53
M +Y ++F G +S + V ++ + ++ +G+TL GHQKKI+NSIQ MR Q++
Sbjct: 23 MGQYKESFANAGFTSFDVVSQMMMEDILRVGVTLAGHQKKILNSIQVMRAQMN 75
>pdb|2QKQ|A Chain A, Structure Of The Sam Domain Of Human Ephrin Type-b
Receptor 4
pdb|2QKQ|B Chain B, Structure Of The Sam Domain Of Human Ephrin Type-b
Receptor 4
Length = 83
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 34/51 (66%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQ 51
M RY ++F G S E V +++ +L +G+TL GHQKKI+ S+Q M++Q
Sbjct: 27 MGRYEESFAAAGFGSFELVSQISAEDLLRIGVTLAGHQKKILASVQHMKSQ 77
>pdb|3KKA|C Chain C, Co-Crystal Structure Of The Sam Domains Of Epha1 And
Epha2
pdb|3KKA|D Chain D, Co-Crystal Structure Of The Sam Domains Of Epha1 And
Epha2
pdb|3KKA|E Chain E, Co-Crystal Structure Of The Sam Domains Of Epha1 And
Epha2
Length = 86
Score = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 35/54 (64%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLSA 54
M +Y ++F G +++E VV++T ++ +G+ L GHQK+I S+ ++ Q++
Sbjct: 33 MQQYTEHFMAAGYTAIEKVVQMTNDDIKRIGVRLPGHQKRIAYSLLGLKDQVNT 86
>pdb|2KSO|A Chain A, Epha2:ship2 Sam:sam Complex
Length = 82
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 35/54 (64%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLSA 54
M +Y ++F G +++E VV++T ++ +G+ L GHQK+I S+ ++ Q++
Sbjct: 28 MQQYTEHFMAAGYTAIEKVVQMTNDDIKRIGVRLPGHQKRIAYSLLGLKDQVNT 81
>pdb|2E8N|A Chain A, Solution Structure Of The C-Terminal Sam-Domain Of
Ephaa2: Ephrin Type-A Receptor 2 Precursor (Ec
2.7.10.1)
Length = 88
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 35/53 (66%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLS 53
M +Y ++F G +++E VV++T ++ +G+ L GHQK+I S+ ++ Q++
Sbjct: 24 MQQYTEHFMAAGYTAIEKVVQMTNDDVKRIGVRLPGHQKRIAYSLLGLKDQVN 76
>pdb|3BS5|B Chain B, Crystal Structure Of Hcnk2-SamDHYP-Sam Complex
Length = 80
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 32/48 (66%), Gaps = 1/48 (2%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAM 48
+ +Y+ NFER IS + ++R+T EL LG++ +GHQ+ I+ ++ +
Sbjct: 23 LQQYIKNFEREKISG-DQLLRITHQELEDLGVSRIGHQELILEAVDLL 69
>pdb|2EAN|A Chain A, Solution Structure Of The N-Terminal Sam-Domain Of Human
Kiaa0902 Protein (Connector Enhancer Of Kinase
Suppressor Of Ras 2)
Length = 83
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 31/45 (68%), Gaps = 1/45 (2%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSI 45
+ +Y+ NFER IS + ++R+T EL LG++ +GHQ+ I+ ++
Sbjct: 27 LQQYIKNFEREKISG-DQLLRITHQELEDLGVSRIGHQELILEAV 70
>pdb|2KG5|A Chain A, Nmr Solution Structure Of Arap3-Sam
Length = 100
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 27/46 (58%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQ 46
+ +Y D F R G+++ A L EL LGI+ GH+K+I+ +Q
Sbjct: 38 LEQYADTFRRHGLATAGAARGLGHEELKQLGISATGHRKRILRLLQ 83
>pdb|3SEI|A Chain A, Crystal Structure Of Caskin1 Tandem Sams
pdb|3SEI|B Chain B, Crystal Structure Of Caskin1 Tandem Sams
Length = 149
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 29/48 (60%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAM 48
+A+Y G +++ + +T +L +GIT +GHQKK+M +++ +
Sbjct: 91 LAQYYKVLVDNGYENIDFITDITWEDLQEIGITKLGHQKKLMLAVRKL 138
Score = 33.5 bits (75), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 4 YLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAM 48
Y NF G + + R+T +L A+G+T GH+KKI I +
Sbjct: 25 YAPNFISAGYD-LPTISRMTPEDLTAIGVTKPGHRKKIAAEISGL 68
>pdb|3SEN|A Chain A, Structure Of Caskin1 Tandem Sams
pdb|3SEN|B Chain B, Structure Of Caskin1 Tandem Sams
pdb|3SEN|C Chain C, Structure Of Caskin1 Tandem Sams
pdb|3SEN|D Chain D, Structure Of Caskin1 Tandem Sams
Length = 157
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 29/48 (60%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAM 48
+A+Y G +++ + +T +L +GIT +GHQKK+M +++ +
Sbjct: 99 LAQYYKVLVDNGYENIDFITDITWEDLQEIGITKLGHQKKLMLAVRKL 146
Score = 33.5 bits (75), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 4 YLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAM 48
Y NF G + + R+T +L A+G+T GH+KKI I +
Sbjct: 33 YAPNFISAGYD-LPTISRMTPEDLTAIGVTKPGHRKKIAAEISGL 76
>pdb|2KIV|A Chain A, Aida-1 Sam Domain Tandem
Length = 148
Score = 32.0 bits (71), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 32/55 (58%), Gaps = 10/55 (18%)
Query: 1 MARYLDNFERG---------GISSMEAVVRLTVAEL-NALGITLVGHQKKIMNSI 45
+A +LD+ E G G +SM+ + ++ EL N L I L+GH+K+I+ S+
Sbjct: 91 VAEWLDSIELGDYTKAFLINGYTSMDLLKKIAEVELINVLKINLIGHRKRILASL 145
>pdb|1X40|A Chain A, Solution Structure Of The Sam Domain Of Human Arap2
Length = 91
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 11/52 (21%), Positives = 31/52 (59%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQL 52
+ +YL +F G ++++ + + L +GI+ GH+++I+ +Q + +++
Sbjct: 27 LEQYLLHFHESGFTTVKDCAAINDSLLQKIGISPTGHRRRILKQLQIILSKM 78
>pdb|3BQ7|A Chain A, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
pdb|3BQ7|B Chain B, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
pdb|3BQ7|C Chain C, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
pdb|3BQ7|D Chain D, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
pdb|3BQ7|E Chain E, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
pdb|3BQ7|F Chain F, Sam Domain Of Diacylglycerol Kinase Delta1 (E35g)
Length = 81
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 1 MARYLDNFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAM 48
+ Y D F R I ++ L +L LG+T VGH K+I+ I+ +
Sbjct: 24 LCEYKDIFTRHDIRG-SGLLHLERRDLKDLGVTKVGHMKRILCGIKEL 70
>pdb|3OE6|A Chain A, Crystal Structure Of The Cxcr4 Chemokine Receptor In
Complex With A Small Molecule Antagonist It1t In I222
Spacegroup
Length = 508
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 7 NFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLS 53
NF + + ++ +++ LT N L I ++G+QKK+ + R LS
Sbjct: 45 NFNKIFLPTIYSIIFLTGIVGNGLVILVMGYQKKLRSMTDKYRLHLS 91
>pdb|3OE0|A Chain A, Crystal Structure Of The Cxcr4 Chemokine Receptor In
Complex With A Cyclic Peptide Antagonist Cvx15
pdb|3OE9|A Chain A, Crystal Structure Of The Chemokine Cxcr4 Receptor In
Complex With A Small Molecule Antagonist It1t In P1
Spacegroup
pdb|3OE9|B Chain B, Crystal Structure Of The Chemokine Cxcr4 Receptor In
Complex With A Small Molecule Antagonist It1t In P1
Spacegroup
Length = 499
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 7 NFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLS 53
NF + + ++ +++ LT N L I ++G+QKK+ + R LS
Sbjct: 45 NFNKIFLPTIYSIIFLTGIVGNGLVILVMGYQKKLRSMTDKYRLHLS 91
>pdb|3ODU|A Chain A, The 2.5 A Structure Of The Cxcr4 Chemokine Receptor In
Complex With Small Molecule Antagonist It1t
pdb|3ODU|B Chain B, The 2.5 A Structure Of The Cxcr4 Chemokine Receptor In
Complex With Small Molecule Antagonist It1t
pdb|3OE8|A Chain A, Crystal Structure Of The Cxcr4 Chemokine Receptor In
Complex With A Small Molecule Antagonist It1t In P1
Spacegroup
pdb|3OE8|B Chain B, Crystal Structure Of The Cxcr4 Chemokine Receptor In
Complex With A Small Molecule Antagonist It1t In P1
Spacegroup
pdb|3OE8|C Chain C, Crystal Structure Of The Cxcr4 Chemokine Receptor In
Complex With A Small Molecule Antagonist It1t In P1
Spacegroup
Length = 502
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 7 NFERGGISSMEAVVRLTVAELNALGITLVGHQKKIMNSIQAMRTQLS 53
NF + + ++ +++ LT N L I ++G+QKK+ + R LS
Sbjct: 45 NFNKIFLPTIYSIIFLTGIVGNGLVILVMGYQKKLRSMTDKYRLHLS 91
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
0.320 0.132 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,314,394
Number of Sequences: 62578
Number of extensions: 28934
Number of successful extensions: 94
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 67
Number of HSP's gapped (non-prelim): 28
length of query: 62
length of database: 14,973,337
effective HSP length: 33
effective length of query: 29
effective length of database: 12,908,263
effective search space: 374339627
effective search space used: 374339627
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: 45 (21.9 bits)