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= psy7479
(170 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 149 bits (376), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 62/120 (51%), Positives = 86/120 (71%)
Query: 18 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 77
K CA CG +I +RFLL A+D +WH CLKC C +LG++G++ Y K+ +ILC+ DY+RL
Sbjct: 4 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 63
Query: 78 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 137
FG +G C+AC + IPA E+VMRA+ NVYHL+CF C C +R GDRF+ + + CE+D
Sbjct: 64 FGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 123
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 149 bits (376), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 62/120 (51%), Positives = 86/120 (71%)
Query: 18 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 77
K CA CG +I +RFLL A+D +WH CLKC C +LG++G++ Y K+ +ILC+ DY+RL
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
Query: 78 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 137
FG +G C+AC + IPA E+VMRA+ NVYHL+CF C C +R GDRF+ + + CE+D
Sbjct: 66 FGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 125
>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 = 145 bits (365), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 69/121 (57%), Positives = 82/121 (67%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 79
C C + I +R+ LKA+D +WHEDCL C C CRLGEVG LY K LC+RDYLRLFG
Sbjct: 5 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG 64
Query: 80 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 139
G CA+C K I A+EM MR K+ VYHLECF C C FCVGDR+ L ++ I+CE D
Sbjct: 65 QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIY 124
Query: 140 E 140
E
Sbjct: 125 E 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 = 104 bits (259), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 51/123 (41%), Positives = 76/123 (61%), Gaps = 6/123 (4%)
Query: 18 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 77
+CA C + I ++F+LK LD WH CLKC DC++ ++ + +A + CK D+ +
Sbjct: 7 PQCAGCNQHILDKFILKVLDRHWHSSCLKCA--DCQM-QLADRCFSRAGSVYCKEDFFKR 63
Query: 78 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEY 136
FGT C AC + IP ++V +A++ VYHL CFAC CN + GD FYL D +++C+
Sbjct: 64 FGTK--CTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKE 121
Query: 137 DYE 139
DYE
Sbjct: 122 DYE 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 = 103 bits (257), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 54/121 (44%), Positives = 72/121 (59%), Gaps = 6/121 (4%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 79
CA C + I +RF+LKALD WH CLKC C L E + + + CK D+ + FG
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFG 65
Query: 80 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 138
T CAAC IP ++V RA++ VYHL CFAC C + GD FYL D++++C+ DY
Sbjct: 66 TK--CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 123
Query: 139 E 139
E
Sbjct: 124 E 124
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 102 bits (255), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 54/121 (44%), Positives = 72/121 (59%), Gaps = 6/121 (4%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 79
CA C + I +RF+LKALD WH CLKC C L E + + + CK D+ + FG
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFG 119
Query: 80 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 138
T CAAC IP ++V RA++ VYHL CFAC C + GD FYL D++++C+ DY
Sbjct: 120 TK--CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 177
Query: 139 E 139
E
Sbjct: 178 E 178
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 33/62 (53%), Positives = 46/62 (74%)
Query: 18 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 77
K CA CG +I +RFLL A+D +WH CLKC C +LG++G++ Y K+ +ILC+ DY+RL
Sbjct: 62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 121
Query: 78 FG 79
FG
Sbjct: 122 FG 123
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 82.4 bits (202), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 38/67 (56%), Positives = 45/67 (67%)
Query: 74 YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKIL 133
YLRLFG G CA+C K I A+EM MR K+ VYHLECF C C F VGDR+ L ++ I+
Sbjct: 3 YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIV 62
Query: 134 CEYDYEE 140
CE D E
Sbjct: 63 CEQDIYE 69
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 20 CASCGKRITE-RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 73
CASC KRI ++ D +H +C KC C VG + I+C++D
Sbjct: 13 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFS-VGDRYLLINSDIVCEQD 66
>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 = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 38/67 (56%), Positives = 45/67 (67%)
Query: 74 YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKIL 133
YLRLFG G CA+C K I A+EM MR K+ VYHLECF C C F VGDR+ L ++ I+
Sbjct: 1 YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIV 60
Query: 134 CEYDYEE 140
CE D E
Sbjct: 61 CEQDIYE 67
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 20 CASCGKRITE-RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 73
CASC KRI ++ D +H +C KC C VG + I+C++D
Sbjct: 11 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHF-SVGDRYLLINSDIVCEQD 64
>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 = 79.7 bits (195), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 32/61 (52%), Positives = 45/61 (73%)
Query: 18 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 77
K CA CG +I +RFLL A+D +WH CLKC C +LG++G++ Y K+ +ILC+ DY+RL
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
Query: 78 F 78
F
Sbjct: 66 F 66
>pdb|1J2O|A Chain A, Structure Of Flin2, A Complex Containing The N-Terminal
Lim Domain Of Lmo2 And Ldb1-Lid
Length = 114
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 34/58 (58%), Positives = 40/58 (68%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 77
C C + I +R+ LKA+D +WHEDCL C C CRLGEVG LY K LC+RDYLRL
Sbjct: 6 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 72 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK 131
+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: 132 ILCEYDYEERQ 142
CE Y R+
Sbjct: 63 PFCELHYHHRR 73
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 18 KECASCGKRITERFLLKALDLFWHEDCLKCGCC 50
+C C + + E +L A+D WH +C CG C
Sbjct: 16 PKCGGCNRPVLENYL-SAMDTVWHPECFVCGDC 47
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 39 FWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVM 98
FWH+ C +C C L T K N ILC + R + C C K I A + +
Sbjct: 28 FWHDTCFRCAKCLHPL--ANETFVAKDNKILCNKCTTRE--DSPKCKGCFKAIVAGDQNV 83
Query: 99 RAKNNVYHLECFA 111
K V+H +CF+
Sbjct: 84 EYKGTVWHKDCFS 96
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 79 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILC 134
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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 4/63 (6%)
Query: 73 DYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 132
DY RL+GT C +C + I V+ A YH +CF C C F GDR +
Sbjct: 9 DYQRLYGTR--CFSCDQFIEG--EVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKEC 64
Query: 133 LCE 135
+C+
Sbjct: 65 MCQ 67
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 18 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 77
++C++CG + + WH++C +C C L +TL +K I CK Y +
Sbjct: 37 EKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL--ESTTLTEKEGEIYCKGCYAKN 94
Query: 78 FGTTGY 83
FG G+
Sbjct: 95 FGPKGF 100
>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 = 0.014, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 84 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 139
C C E ++ + +YH +CF C QC +F G FY + + CE+D++
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEG-LFYEFEGRKYCEHDFQ 68
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 80 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 139
+ 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 = 0.020, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 80 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 139
+ C C E ++ + +YH +CF C QC +F G FY + + CE+D++
Sbjct: 6 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEG-LFYEFEGRKYCEHDFQ 64
>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 = 34.7 bits (78), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 18 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 77
++C+ CG + + WH++C +C C L +TL +K I CK Y +
Sbjct: 37 EKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL--ESTTLTEKEGEIYCKGCYAKN 94
Query: 78 FGTTGY 83
FG G+
Sbjct: 95 FGPKGF 100
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 34.3 bits (77), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 27/62 (43%), Gaps = 5/62 (8%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRL-GEVGSTLYQKANLILCKRDYLRLF 78
CA C + I L ALD WH C KC C L GE K + C+ DY F
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGE----YISKDGVPYCESDYHAQF 73
Query: 79 GT 80
G+
Sbjct: 74 GS 75
Score = 29.6 bits (65), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 9/79 (11%)
Query: 75 LRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILC 134
+++ G + +CA C + I + ++ A + +H+ CF CQ C+ + + D C
Sbjct: 10 IKIRGPS-HCAGCKEEIKHGQSLL-ALDKQWHVSCFKCQTCS--VILTGEYISKDGVPYC 65
Query: 135 EYDYEERQVFANIAYNPSS 153
E DY A PSS
Sbjct: 66 ESDYH-----AQFGSGPSS 79
>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 = 33.1 bits (74), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 84 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 139
C C E ++ + +YH CF C QC F G FY + + CE+D++
Sbjct: 14 CQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEG-LFYEFEGRKYCEHDFQ 68
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 9/71 (12%)
Query: 84 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYL-CDNKILCEYDYEERQ 142
CA C++ P + ++RA YH CF C C HR G F + ++I C D+ +
Sbjct: 18 CATCSQ--PILDRILRAMGKAYHPGCFTCVVC-HRGLDGIPFTVDATSQIHCIEDFHRK- 73
Query: 143 VFANIAYNPSS 153
A PSS
Sbjct: 74 ----FASGPSS 80
>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 = 0.27, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 84 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 140
C C K + E ++ A V+H+ CF C CN++ +G L +I C+ + +
Sbjct: 18 CVECQKTVYPMERLL-ANQQVFHISCFRCSYCNNKLSLGTYASL-HGRIYCKPHFNQ 72
>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 = 0.29, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 72 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK 131
+DY FG +C C+ ++ MV A YH ECFAC C GD + L +
Sbjct: 8 KDYWGKFGE--FCHGCSLLMTGPFMV--AGEFKYHPECFACMSCKVIIEDGDAYALVQHA 63
Query: 132 IL 133
L
Sbjct: 64 TL 65
>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 = 0.34, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 18/42 (42%)
Query: 84 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRF 125
C C K I A + + K V+H +CF C C G F
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFF 59
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 30.4 bits (67), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK 71
C CG+ I R ++KA++ WH +C +C C L ++G + A LC+
Sbjct: 8 CHQCGEFIIGR-VIKAMNNSWHPECFRCDLCQEVLADIG--FVKNAGRHLCR 56
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 79 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQC 115
G++G C C + I V++A NN +H ECF C C
Sbjct: 4 GSSG-CHQCGEFI--IGRVIKAMNNSWHPECFRCDLC 37
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 30.4 bits (67), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 9/76 (11%)
Query: 79 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYD 137
G++G C C K I M K + +H CF C +C +G + ++ DN+ C
Sbjct: 4 GSSG-CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQP--IGTKSFIPKDNQNFCVPC 60
Query: 138 YEERQVFANIAYNPSS 153
YE++ A PSS
Sbjct: 61 YEKQH-----ASGPSS 71
>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 = 29.6 bits (65), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 5/64 (7%)
Query: 84 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 143
C AC + I V+ A +H+E F C +C F +G R Y CE Y Q+
Sbjct: 8 CGACRRPIEG--RVVNAMGKQWHVEHFVCAKCEKPF-LGHRHYERKGLAYCETHYN--QL 62
Query: 144 FANI 147
F ++
Sbjct: 63 FGDV 66
Score = 29.6 bits (65), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 79
C +C +R E ++ A+ WH + C C+ +G Y++ L C+ Y +LFG
Sbjct: 8 CGAC-RRPIEGRVVNAMGKQWHVEHFVCAKCEKPF--LGHRHYERKGLAYCETHYNQLFG 64
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 29.6 bits (65), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 79
C CG+ + + WH+ C +C C L +TL K I CK Y + FG
Sbjct: 118 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSL--ESTTLADKDGEIYCKGCYAKNFG 175
Query: 80 T 80
Sbjct: 176 P 176
>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 = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 84 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 132
C +C K I V+ A YH C C +C F G+ YL + I
Sbjct: 8 CDSCEKYITG--RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSI 54
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 79
C CG+ + + WH+ C +C C L +TL K I CK Y + FG
Sbjct: 11 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSL--ESTTLADKDGEIYCKGCYAKNFG 68
Query: 80 T 80
Sbjct: 69 P 69
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 79 GTTGYCAACTKVIPAFEMVMRA--KNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE 135
G++G C AC+K I +++ +H ECF C +C+ VG F + +I C+
Sbjct: 4 GSSG-CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL-VGKGFLTQNKEIFCQ 60
Score = 26.6 bits (57), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 20 CASCGKRITERFLLKAL---DLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 72
C +C K I+ K + D WH +C CG C L VG + I C++
Sbjct: 8 CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL--VGKGFLTQNKEIFCQK 61
>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 = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 31/125 (24%), Positives = 49/125 (39%), Gaps = 9/125 (7%)
Query: 20 CASCGKRITERFLLKALDLFWHEDCLKCGCC-DCRLGEVGSTLYQKANLILCKRDYLRLF 78
CA C + I +A + WH LK CC DC G + +CK Y++
Sbjct: 6 CAGCDELIFSNEYTQAENQNWH---LKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNH 62
Query: 79 GTTGYCAACTKVIPAFEMVMRAKNNVYH--LECFACQQCNHRFCVGDRFYLCDNKILCEY 136
C C I + N +H ECF C C+ + +G +F + + C
Sbjct: 63 AVV--CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCS-KCLIGQKFMPVEGMVFCSV 119
Query: 137 DYEER 141
+ ++R
Sbjct: 120 ECKKR 124
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 6/54 (11%)
Query: 100 AKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSS 153
A + V+H+ CF C C + G FY + + CE Y A + PSS
Sbjct: 24 ALDRVFHVGCFVCSTCRAQL-RGQHFYAVERRAYCEGCY-----VATLESGPSS 71
>pdb|1AIQ|A Chain A, Crystal Structure Of Thymidylate Synthase R126e Mutant
pdb|1AIQ|B Chain B, Crystal Structure Of Thymidylate Synthase R126e Mutant
pdb|1AJM|A Chain A, Crystal Structure Of Thymidylate Synthase R126e Mutant
Length = 264
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 92 PAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNP 151
P E ++ + NV L+ A C+ F +FY+ D K+ C+ VF + +N
Sbjct: 123 PDSERIIVSAWNVGELDKMALAPCHAFF----QFYVADGKLSCQLYQRSCDVFLGLPFNI 178
Query: 152 SSLAHLRRQVTLQ 164
+S A L + Q
Sbjct: 179 ASYALLVHMMAQQ 191
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 26.9 bits (58), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 19 ECASCGKRITERFLLKALDLFWHEDCL 45
CA CGK + + LD FWH+ C
Sbjct: 5 NCARCGKIVYPTEKVNCLDKFWHKACF 31
>pdb|1EV5|A Chain A, Crystal Structure Analysis Of Ala167 Mutant Of Escherichia
Coli
Length = 264
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 4/73 (5%)
Query: 92 PAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNP 151
P ++ + NV L+ A C+ F +FY+ D K+ C+ VF + +N
Sbjct: 123 PDSRRIIVSAWNVGELDKMALAPCHAFF----QFYVADGKLSCQLYQRAXDVFLGLPFNI 178
Query: 152 SSLAHLRRQVTLQ 164
+S A L + Q
Sbjct: 179 ASYALLVHMMAQQ 191
>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 = 9.5, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 8/57 (14%)
Query: 79 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQC-----NHRFCVGDRFYLCDN 130
G++G C C K I + R + +H ECF C C RF D F C N
Sbjct: 4 GSSG-CVQCKKPITTGGVTYREQ--PWHKECFVCTACRKQLSGQRFTARDDFAYCLN 57
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 3/66 (4%)
Query: 19 ECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD-YLRL 77
+C C K + + +L WH CLKC C L G ++ C Y +
Sbjct: 2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHE--GKPYCNHPCYSAM 59
Query: 78 FGTTGY 83
FG G+
Sbjct: 60 FGPKGF 65
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
0.330 0.140 0.474
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,585,814
Number of Sequences: 62578
Number of extensions: 168681
Number of successful extensions: 461
Number of sequences better than 100.0: 69
Number of HSP's better than 100.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 398
Number of HSP's gapped (non-prelim): 85
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 48 (23.1 bits)