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= psy12215
(155 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XJY|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21
Crystal Form
pdb|2XJZ|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|B Chain B, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|C Chain C, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|D Chain D, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|E Chain E, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
Length = 131
Score = 130 bits (327), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 63/106 (59%), Positives = 73/106 (68%)
Query: 1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
A+D +WHEDCL C C CRLGEVG LY K LC+RDYLRLFG G CA+C K I A+
Sbjct: 20 AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAY 79
Query: 61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
EM MR K+ VYHLECF C C FCVGDR+ L ++ I+CE D E
Sbjct: 80 EMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYE 125
>pdb|2DFY|X Chain X, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim
Domains 1 And 2 With The Lim Interacting Domain Of Ldb1
pdb|2DFY|C Chain C, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim
Domains 1 And 2 With The Lim Interacting Domain Of Ldb1
Length = 195
Score = 128 bits (322), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 52/103 (50%), Positives = 74/103 (71%)
Query: 1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
A+D +WH CLKC C +LG++G++ Y K+ +ILC+ DY+RLFG +G C+AC + IPA
Sbjct: 21 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 80
Query: 61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
E+VMRA+ NVYHL+CF C C +R GDRF+ + + CE+D
Sbjct: 81 ELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 123
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 128 bits (321), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 52/103 (50%), Positives = 74/103 (71%)
Query: 1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
A+D +WH CLKC C +LG++G++ Y K+ +ILC+ DY+RLFG +G C+AC + IPA
Sbjct: 23 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 82
Query: 61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
E+VMRA+ NVYHL+CF C C +R GDRF+ + + CE+D
Sbjct: 83 ELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 125
>pdb|3MMK|A Chain A, The Structural Basis For Partial Redundancy In A Class Of
Transcription Factors, The Lim-Homeodomain Proteins, In
Neural Cell Type Specification
pdb|3MMK|B Chain B, The Structural Basis For Partial Redundancy In A Class Of
Transcription Factors, The Lim-Homeodomain Proteins, In
Neural Cell Type Specification
Length = 169
Score = 85.9 bits (211), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 44/105 (41%), Positives = 64/105 (60%), Gaps = 6/105 (5%)
Query: 2 LDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFE 61
LD WH CLKC DC++ ++ + +A + CK D+ + FGT C AC + IP +
Sbjct: 25 LDRHWHSSCLKCA--DCQM-QLADRCFSRAGSVYCKEDFFKRFGTK--CTACQQGIPPTQ 79
Query: 62 MVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYE 105
+V +A++ VYHL CFAC CN + GD FYL D +++C+ DYE
Sbjct: 80 VVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124
>pdb|2RGT|A Chain A, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
pdb|2RGT|B Chain B, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
Length = 169
Score = 85.5 bits (210), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 46/106 (43%), Positives = 61/106 (57%), Gaps = 6/106 (5%)
Query: 1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
ALD WH CLKC C L E + + + CK D+ + FGT CAAC IP
Sbjct: 24 ALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFGTK--CAACQLGIPPT 78
Query: 61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYE 105
++V RA++ VYHL CFAC C + GD FYL D++++C+ DYE
Sbjct: 79 QVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 124
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 85.1 bits (209), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 46/106 (43%), Positives = 61/106 (57%), Gaps = 6/106 (5%)
Query: 1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
ALD WH CLKC C L E + + + CK D+ + FGT CAAC IP
Sbjct: 78 ALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFGTK--CAACQLGIPPT 132
Query: 61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYE 105
++V RA++ VYHL CFAC C + GD FYL D++++C+ DYE
Sbjct: 133 QVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 82.0 bits (201), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 38/67 (56%), Positives = 45/67 (67%)
Query: 40 YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKIL 99
YLRLFG G CA+C K I A+EM MR K+ VYHLECF C C F VGDR+ L ++ I+
Sbjct: 3 YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIV 62
Query: 100 CEYDYEE 106
CE D E
Sbjct: 63 CEQDIYE 69
>pdb|2L6Y|B Chain B, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid
pdb|2L6Z|C Chain C, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid With Fog
Length = 96
Score = 81.3 bits (199), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 38/67 (56%), Positives = 45/67 (67%)
Query: 40 YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKIL 99
YLRLFG G CA+C K I A+EM MR K+ VYHLECF C C F VGDR+ L ++ I+
Sbjct: 1 YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIV 60
Query: 100 CEYDYEE 106
CE D E
Sbjct: 61 CEQDIYE 67
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 61.6 bits (148), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 34/45 (75%)
Query: 1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 45
A+D +WH CLKC C +LG++G++ Y K+ +ILC+ DY+RLFG
Sbjct: 79 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123
>pdb|1J2O|A Chain A, Structure Of Flin2, A Complex Containing The N-Terminal
Lim Domain Of Lmo2 And Ldb1-Lid
Length = 114
Score = 60.1 bits (144), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/43 (65%), Positives = 31/43 (72%)
Query: 1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 43
A+D +WHEDCL C C CRLGEVG LY K LC+RDYLRL
Sbjct: 21 AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63
>pdb|1M3V|A Chain A, Flin4: Fusion Of The Lim Binding Domain Of Ldb1 And The
N- Terminal Lim Domain Of Lmo4
Length = 122
Score = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 33/44 (75%)
Query: 1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 44
A+D +WH CLKC C +LG++G++ Y K+ +ILC+ DY+RLF
Sbjct: 23 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 38 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK 97
+D+L +F C C + P E + A + V+H ECF C C F G F L D +
Sbjct: 8 KDFLAMFSPK--CGGCNR--PVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFEL-DGR 62
Query: 98 ILCEYDYEERQ 108
CE Y R+
Sbjct: 63 PFCELHYHHRR 73
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 3 DLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEM 62
+ FWH+ C +C C L T K N ILC + R + C C K I A +
Sbjct: 26 NRFWHDTCFRCAKCLHPL--ANETFVAKDNKILCNKCTTRE--DSPKCKGCFKAIVAGDQ 81
Query: 63 VMRAKNNVYHLECFA 77
+ K V+H +CF+
Sbjct: 82 NVEYKGTVWHKDCFS 96
Score = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 45 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILC 100
G++G C C K I A + KN +H CF C +C H + F DNKILC
Sbjct: 4 GSSG-CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPL-ANETFVAKDNKILC 57
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 4/63 (6%)
Query: 39 DYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 98
DY RL+GT C +C + I V+ A YH +CF C C F GDR +
Sbjct: 9 DYQRLYGTR--CFSCDQFIEG--EVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKEC 64
Query: 99 LCE 101
+C+
Sbjct: 65 MCQ 67
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 35.4 bits (80), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 46 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 105
+ C C E ++ + +YH +CF C QC +F G FY + + CE+D++
Sbjct: 10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEG-LFYEFEGRKYCEHDFQ 68
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 35.0 bits (79), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 46 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 105
+ C C E ++ + +YH +CF C QC +F G FY + + CE+D++
Sbjct: 10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEG-LFYEFEGRKYCEHDFQ 68
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 35.0 bits (79), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 46 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 105
+ C C E ++ + +YH +CF C QC +F G FY + + CE+D++
Sbjct: 6 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEG-LFYEFEGRKYCEHDFQ 64
>pdb|3IXE|B Chain B, Structural Basis Of Competition Between Pinch1 And Pinch2
For Binding To The Ankyrin Repeat Domain Of
Integrin-Linked Kinase
Length = 72
Score = 32.7 bits (73), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 1/61 (1%)
Query: 45 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
C C E ++ + +YH CF C QC F G FY + + CE+D+
Sbjct: 9 SANAVCQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEG-LFYEFEGRKYCEHDF 67
Query: 105 E 105
+
Sbjct: 68 Q 68
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 6 WHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGY 49
WH++C +C C L +TL +K I CK Y + FG G+
Sbjct: 59 WHKNCFRCAKCGKSL--ESTTLTEKEGEIYCKGCYAKNFGPKGF 100
>pdb|1IBI|A Chain A, Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Minimized
Model Structures
pdb|1QLI|A Chain A, Quail Cysteine And Glycine-Rich Protein, Nmr, Minimized
Average Structure
Length = 113
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 6 WHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGY 49
WH++C +C C L +TL +K I CK Y + FG G+
Sbjct: 59 WHKNCFRCAKCGKSL--ESTTLTEKEGEIYCKGCYAKNFGPKGF 100
>pdb|2GFQ|A Chain A, Structure Of Protein Of Unknown Function Ph0006 From
Pyrococcus Horikoshii
pdb|2GFQ|B Chain B, Structure Of Protein Of Unknown Function Ph0006 From
Pyrococcus Horikoshii
pdb|2GFQ|C Chain C, Structure Of Protein Of Unknown Function Ph0006 From
Pyrococcus Horikoshii
Length = 298
Score = 31.6 bits (70), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%)
Query: 100 CEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQ 155
EY +E V+ GD L N YDY +R++ + + P +A R + Q
Sbjct: 51 TEYVFEGNPVYKRGDVLILTTNDEXIYYDYLDREIENQLGFKPEIIAFASRHSSKQ 106
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 31.2 bits (69), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 50 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYL-CDNKILCEYDYEER 107
CA C++ P + ++RA YH CF C C HR G F + ++I C D+ +
Sbjct: 18 CATCSQ--PILDRILRAMGKAYHPGCFTCVVC-HRGLDGIPFTVDATSQIHCIEDFHRK 73
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human
Lim- Kinase 2 (limk2)
Length = 81
Score = 31.2 bits (69), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 38 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK 97
+DY FG +C C+ ++ MV A YH ECFAC C GD + L +
Sbjct: 8 KDYWGKFGE--FCHGCSLLMTGPFMV--AGEFKYHPECFACMSCKVIIEDGDAYALVQHA 63
Query: 98 IL 99
L
Sbjct: 64 TL 65
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein
Lost In Neoplasm
Length = 91
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 50 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
C C K + E ++ A V+H+ CF C CN++ +G L +I C+ + +
Sbjct: 18 CVECQKTVYPMERLL-ANQQVFHISCFRCSYCNNKLSLGTYASL-HGRIYCKPHFNQ 72
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 30.8 bits (68), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 18/42 (42%)
Query: 50 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRF 91
C C K I A + + K V+H +CF C C G F
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFF 59
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 29.3 bits (64), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 4/66 (6%)
Query: 45 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYD 103
G++G C C K I M K + +H CF C +C +G + ++ DN+ C
Sbjct: 4 GSSG-CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQP--IGTKSFIPKDNQNFCVPC 60
Query: 104 YEERQV 109
YE++
Sbjct: 61 YEKQHA 66
>pdb|1WIG|A Chain A, Solution Structure Of Rsgi Ruh-019, A Lim Domain Of
Actin Binding Lim Protein 2 (kiaa1808 Protein) From
Human Cdna
Length = 73
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 50 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 98
C +C K I V+ A YH C C +C F G+ YL + I
Sbjct: 8 CDSCEKYITG--RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSI 54
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 45 GTTGYCAACTKVIPAFEMVMRA--KNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE 101
G++G C AC+K I +++ +H ECF C +C+ VG F + +I C+
Sbjct: 4 GSSG-CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL-VGKGFLTQNKEIFCQ 60
>pdb|1NYP|A Chain A, 4th Lim Domain Of Pinch Protein
pdb|1U5S|B Chain B, Nmr Structure Of The Complex Between Nck-2 Sh3 Domain And
Pinch-1 Lim4 Domain
Length = 66
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 50 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
C AC + I V+ A +H+E F C +C F +G R Y CE Y +
Sbjct: 8 CGACRRPIEG--RVVNAMGKQWHVEHFVCAKCEKPF-LGHRHYERKGLAYCETHYNQ 61
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim
Protein 3
Length = 80
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 41 LRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILC 100
+++ G + +CA C + I + ++ A + +H+ CF CQ C+ + + D C
Sbjct: 10 IKIRGPS-HCAGCKEEIKHGQSLL-ALDKQWHVSCFKCQTCS--VILTGEYISKDGVPYC 65
Query: 101 EYDYEER 107
E DY +
Sbjct: 66 ESDYHAQ 72
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 5/47 (10%)
Query: 1 ALDLFWHEDCLKCGCCDCRL-GEVGSTLYQKANLILCKRDYLRLFGT 46
ALD WH C KC C L GE K + C+ DY FG+
Sbjct: 33 ALDKQWHVSCFKCQTCSVILTGE----YISKDGVPYCESDYHAQFGS 75
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 45 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQC 81
G++G C C + I V++A NN +H ECF C C
Sbjct: 4 GSSG-CHQCGEFI--IGRVIKAMNNSWHPECFRCDLC 37
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 6 WHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 45
WH+ C +C C L +TL K I CK Y + FG
Sbjct: 138 WHKSCFRCAKCGKSL--ESTTLADKDGEIYCKGCYAKNFG 175
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 66 AKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE 101
A + V+H+ CF C C + G FY + + CE
Sbjct: 24 ALDRVFHVGCFVCSTCRAQL-RGQHFYAVERRAYCE 58
>pdb|2D8Z|A Chain A, Solution Structure Of The Third Lim Domain Of Four And A
Half Lim Domains Protein 2 (Fhl-2)
Length = 70
Score = 26.2 bits (56), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 23/57 (40%), Gaps = 8/57 (14%)
Query: 45 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQC-----NHRFCVGDRFYLCDN 96
G++G C C K I + R +H ECF C C RF D F C N
Sbjct: 4 GSSG-CVQCKKPITTGGVTYR--EQPWHKECFVCTACRKQLSGQRFTARDDFAYCLN 57
>pdb|2XQN|T Chain T, Complex Of The 2nd And 3rd Lim Domains Of Tes With The
Evh1 Domain Of Mena And The N-Terminal Domain Of
Actin-Like Protein Arp7a
Length = 126
Score = 26.2 bits (56), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 48/96 (50%), Gaps = 11/96 (11%)
Query: 50 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY-EERQ 108
CA C ++I + E +A+N +HL+ F C C+ G+ + + ++K +C+ Y +
Sbjct: 6 CAGCDELIFSNEYT-QAENQNWHLKHFCCFDCDSIL-AGEIYVMVNDKPVCKPCYVKNHA 63
Query: 109 VFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSS 144
V C G C N I E +R + N +++ S+
Sbjct: 64 VVCQG-----CHNAIDPEV---QRVTYNNFSWHAST 91
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 26.2 bits (56), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 6 WHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT 46
WH+ C +C C L +TL K I CK Y + FG
Sbjct: 31 WHKSCFRCAKCGKSL--ESTTLADKDGEIYCKGCYAKNFGP 69
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
0.331 0.144 0.496
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,803,108
Number of Sequences: 62578
Number of extensions: 183441
Number of successful extensions: 489
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 420
Number of HSP's gapped (non-prelim): 69
length of query: 155
length of database: 14,973,337
effective HSP length: 91
effective length of query: 64
effective length of database: 9,278,739
effective search space: 593839296
effective search space used: 593839296
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 47 (22.7 bits)