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= psy284
(139 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 = 137 bits (344), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 58/101 (57%), Positives = 77/101 (76%)
Query: 39 QECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRL 98
+ CAGCG I DRFLL A+D YWH CLKC C +LG++G++ YTK+ +ILC+ DY+RL
Sbjct: 4 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 63
Query: 99 FGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCNHR 139
FG++G C+AC + IPA E+VMRA+ NVYHL+CF C C +R
Sbjct: 64 FGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNR 104
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 136 bits (343), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 58/101 (57%), Positives = 77/101 (76%)
Query: 39 QECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRL 98
+ CAGCG I DRFLL A+D YWH CLKC C +LG++G++ YTK+ +ILC+ DY+RL
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
Query: 99 FGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCNHR 139
FG++G C+AC + IPA E+VMRA+ NVYHL+CF C C +R
Sbjct: 66 FGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNR 106
>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 = 128 bits (322), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 59/97 (60%), Positives = 68/97 (70%)
Query: 41 CAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFG 100
C GC ++I DR+ LKA+D YWHEDCL C C CRLGEVG LY K LC+RDYLRLFG
Sbjct: 5 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG 64
Query: 101 STGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCN 137
G CA+C K I A+EM MR ++ VYHLECF C C
Sbjct: 65 QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 101
>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 = 94.0 bits (232), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 46/104 (44%), Positives = 68/104 (65%), Gaps = 6/104 (5%)
Query: 36 QGPQECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDY 95
Q PQ CAGC +HI D+F+LK LD +WH CLKC DC++ ++ +++A + CK D+
Sbjct: 5 QIPQ-CAGCNQHILDKFILKVLDRHWHSSCLKCA--DCQM-QLADRCFSRAGSVYCKEDF 60
Query: 96 LRLFGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCNHR 139
+ FG+ C AC + IP ++V +A++ VYHL CFAC CN +
Sbjct: 61 FKRFGTK--CTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQ 102
Score = 26.2 bits (56), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 40 ECAGCGKHITD-RFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDY 95
+C C + I + + KA D +H C C C+ +L + ++CK DY
Sbjct: 67 KCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDY 123
>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 = 92.8 bits (229), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 46/97 (47%), Positives = 60/97 (61%), Gaps = 5/97 (5%)
Query: 41 CAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFG 100
CAGC +HI DRF+LKALD +WH CLKC C L E +++ + CK D+ + FG
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFG 65
Query: 101 STGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCN 137
+ CAAC IP ++V RA++ VYHL CFAC C
Sbjct: 66 TK--CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCK 100
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 92.8 bits (229), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 46/99 (46%), Positives = 61/99 (61%), Gaps = 5/99 (5%)
Query: 41 CAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFG 100
CAGC +HI DRF+LKALD +WH CLKC C L E +++ + CK D+ + FG
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFG 119
Query: 101 STGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCNHR 139
+ CAAC IP ++V RA++ VYHL CFAC C +
Sbjct: 120 TK--CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQ 156
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 36/62 (58%), Positives = 47/62 (75%)
Query: 39 QECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRL 98
+ CAGCG I DRFLL A+D YWH CLKC C +LG++G++ YTK+ +ILC+ DY+RL
Sbjct: 62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 121
Query: 99 FG 100
FG
Sbjct: 122 FG 123
>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 = 85.1 bits (209), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 35/61 (57%), Positives = 46/61 (75%)
Query: 39 QECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRL 98
+ CAGCG I DRFLL A+D YWH CLKC C +LG++G++ YTK+ +ILC+ DY+RL
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
Query: 99 F 99
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 = 82.0 bits (201), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 37/58 (63%), Positives = 42/58 (72%)
Query: 41 CAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRL 98
C GC ++I DR+ LKA+D YWHEDCL C C CRLGEVG LY K LC+RDYLRL
Sbjct: 6 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/42 (61%), Positives = 30/42 (71%)
Query: 95 YLRLFGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
YLRLFG G CA+C K I A+EM MR ++ VYHLECF C C
Sbjct: 3 YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAAC 44
>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 = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 26/43 (60%), Positives = 30/43 (69%)
Query: 95 YLRLFGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCN 137
YLRLFG G CA+C K I A+EM MR ++ VYHLECF C C
Sbjct: 1 YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 43
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim
Protein 3
Length = 80
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 24 GAQQTKAVPNNAQGPQECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRL-GEVGSTL 82
G+ + P +GP CAGC + I L ALD WH C KC C L GE
Sbjct: 1 GSSGSSGKPIKIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGE----Y 56
Query: 83 YTKANLILCKRDYLRLFGS 101
+K + C+ DY FGS
Sbjct: 57 ISKDGVPYCESDYHAQFGS 75
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 104 YCAACSKVIPAFEMVMRARNNVYHLECFACQQCN 137
+CA C + I + ++ A + +H+ CF CQ C+
Sbjct: 17 HCAGCKEEIKHGQSLL-ALDKQWHVSCFKCQTCS 49
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 39.3 bits (90), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 42/99 (42%), Gaps = 5/99 (5%)
Query: 35 AQGPQECAGCGKHI-TDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKR 93
+ G C C K I D + + +WH+ C +C C L T K N ILC +
Sbjct: 2 SSGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPL--ANETFVAKDNKILCNK 59
Query: 94 DYLRLFGSTGYCAACSKVIPAFEMVMRARNNVYHLECFA 132
R + C C K I A + + + V+H +CF+
Sbjct: 60 CTTRE--DSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFS 96
Score = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 100 GSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCNH 138
GS+G C C K I A + +N +H CF C +C H
Sbjct: 4 GSSG-CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLH 41
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 8/97 (8%)
Query: 14 RMSMDVKTQQGAQQTKAVPNNAQ------GPQECAGCGKHITDRFLLKALDMYWHEDCLK 67
R+ + ++ + PN ++ G ++C+ CG + + WH++C +
Sbjct: 6 RLGIKPESSPSPHRPTTNPNTSKFAQKFGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFR 65
Query: 68 CGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGSTGY 104
C C L +TL K I CK Y + FG G+
Sbjct: 66 CAKCGKSL--ESTTLTEKEGEIYCKGCYAKNFGPKGF 100
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 95 YLRLFGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQCN 137
+ + FG C+AC + A E V+ A +H CF C +C
Sbjct: 29 FAQKFGGAEKCSACGDSVYAAEKVIGA-GKPWHKNCFRCAKCG 70
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 8/97 (8%)
Query: 14 RMSMDVKTQQGAQQTKAVPNNAQ------GPQECAGCGKHITDRFLLKALDMYWHEDCLK 67
R+ + ++ + PN ++ G ++C+ CG + + WH++C +
Sbjct: 6 RLGIKPESSPSPHRPTTNPNTSKFAQKFGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFR 65
Query: 68 CGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGSTGY 104
C C L +TL K I CK Y + FG G+
Sbjct: 66 CAKCGKSL--ESTTLTEKEGEIYCKGCYAKNFGPKGF 100
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 34.7 bits (78), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 37/91 (40%), Gaps = 8/91 (8%)
Query: 16 SMDVKTQQGAQQTKAVPNNAQ------GPQECAGCGKHITDRFLLKALDMYWHEDCLKCG 69
S+ +K ++G PN ++ G C CG+ + + WH+ C +C
Sbjct: 87 SLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCA 146
Query: 70 CCDCRLGEVGSTLYTKANLILCKRDYLRLFG 100
C L +TL K I CK Y + FG
Sbjct: 147 KCGKSL--ESTTLADKDGEIYCKGCYAKNFG 175
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 33.1 bits (74), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 35 AQGPQECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCK 92
+ G C CG+ I R ++KA++ WH +C +C C L ++G A LC+
Sbjct: 2 SSGSSGCHQCGEFIIGR-VIKAMNNSWHPECFRCDLCQEVLADIG--FVKNAGRHLCR 56
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 100 GSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
GS+G C C + I V++A NN +H ECF C C
Sbjct: 4 GSSG-CHQCGEFI--IGRVIKAMNNSWHPECFRCDLC 37
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 32.7 bits (73), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 93 RDYLRLFGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
+D+L +F C C++ P E + A + V+H ECF C C
Sbjct: 8 KDFLAMFSPK--CGGCNR--PVLENYLSAMDTVWHPECFVCGDC 47
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 39 QECAGCGKHITDRFLLKALDMYWHEDCLKCGCC 71
+C GC + + + +L A+D WH +C CG C
Sbjct: 16 PKCGGCNRPVLENYL-SAMDTVWHPECFVCGDC 47
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of
Human Fhl5 Protein
Length = 76
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 5/63 (7%)
Query: 34 NAQGPQECAGCGKHITDRFLLKAL---DMYWHEDCLKCGCCDCRLGEVGSTLYTKANLIL 90
+ G C C K I+ K + D WH +C CG C L VG T+ I
Sbjct: 1 GSSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL--VGKGFLTQNKEIF 58
Query: 91 CKR 93
C++
Sbjct: 59 CQK 61
Score = 25.8 bits (55), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 100 GSTGYCAACSKVIPAFE--MVMRARNNVYHLECFACQQCN 137
GS+G C ACSK I + +++ +H ECF C +C+
Sbjct: 4 GSSG-CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCS 42
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 2/63 (3%)
Query: 39 QECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRL 98
++CA C + I DR +L+A+ +H C C C L + T+ + I C D+ R
Sbjct: 16 EKCATCSQPILDR-ILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQ-IHCIEDFHRK 73
Query: 99 FGS 101
F S
Sbjct: 74 FAS 76
Score = 30.0 bits (66), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 105 CAACSKVIPAFEMVMRARNNVYHLECFACQQCN 137
CA CS+ P + ++RA YH CF C C+
Sbjct: 18 CATCSQ--PILDRILRAMGKAYHPGCFTCVVCH 48
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human Lim-
Kinase 2 (limk2)
Length = 81
Score = 30.0 bits (66), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 93 RDYLRLFGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
+DY FG +C CS ++ MV A YH ECFAC C
Sbjct: 8 KDYWGKFGE--FCHGCSLLMTGPFMV--AGEFKYHPECFACMSC 47
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein
Lost In Neoplasm
Length = 91
Score = 29.6 bits (65), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 105 CAACSKVIPAFEMVMRARNNVYHLECFACQQCNHR 139
C C K + E ++ A V+H+ CF C CN++
Sbjct: 18 CVECQKTVYPMERLL-ANQQVFHISCFRCSYCNNK 51
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 8/83 (9%)
Query: 24 GAQQTKAVPNNAQGPQECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLY 83
G+ + + A + C C K + L A +H C +C C+ +L +L
Sbjct: 1 GSSGSSGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKL-----SLG 55
Query: 84 TKANL---ILCKRDYLRLFGSTG 103
T A+L I CK + +LF S G
Sbjct: 56 TYASLHGRIYCKPHFNQLFKSKG 78
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 29.3 bits (64), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 94 DYLRLFGSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
DY RL+G+ C +C + I V+ A YH +CF C C
Sbjct: 9 DYQRLYGTR--CFSCDQFIEG--EVVSALGKTYHPDCFVCAVC 47
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 29.3 bits (64), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 2/64 (3%)
Query: 37 GPQECAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYL 96
G C CG+ + + WH+ C +C C L +TL K I CK Y
Sbjct: 7 GSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLES--TTLADKDGEIYCKGCYA 64
Query: 97 RLFG 100
+ FG
Sbjct: 65 KNFG 68
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 28.9 bits (63), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 105 CAACSKVIPAFEMVMRARNNVYHLECFACQQCNH 138
C C K I A + + + V+H +CF C C
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQ 51
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 27.7 bits (60), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 118 VMRARNNVYHLECFACQQCN 137
V++AR+ H ECF C CN
Sbjct: 39 VVKARDKYRHPECFVCADCN 58
>pdb|1D4U|A Chain A, Interactions Of Human Nucleotide Excision Repair Protein
Xpa With Rpa70 And Dna: Chemical Shift Mapping And 15n
Nmr Relaxation Studies
Length = 111
Score = 26.6 bits (57), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 11/56 (19%)
Query: 41 CAGCGKHITDRFLLKALDMYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYL 96
C CGK D +L+ D+ C DCR + L TK K++YL
Sbjct: 8 CEECGKEFMDSYLMDHFDL--------PTCDDCRDADDKHKLITKTE---AKQEYL 52
>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 = 6.2, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 38/100 (38%), Gaps = 8/100 (8%)
Query: 41 CAGCGKHITDRFLLKALDMYWHEDCLKCGCC-DCRLGEVGSTLYTKANLILCKRDYLRLF 99
CAGC + I +A + WH LK CC DC G + +CK Y++
Sbjct: 6 CAGCDELIFSNEYTQAENQNWH---LKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVK-- 60
Query: 100 GSTGYCAACSKVIPAFEMVMRARNNVYH--LECFACQQCN 137
C C I + N +H ECF C C+
Sbjct: 61 NHAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCS 100
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 26.2 bits (56), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 101 STGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
++ C C E ++ + +YH +CF C QC
Sbjct: 10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 45
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 25.8 bits (55), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 100 GSTGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
GS+G C C K I M + + +H CF C +C
Sbjct: 4 GSSG-CQECKKTIMPGTRKMEYKGSSWHETCFICHRC 39
>pdb|3EHG|A Chain A, Crystal Structure Of The Atp-Binding Domain Of Desk In
Complex With Atp
Length = 128
Score = 25.8 bits (55), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 8 EHLKINRMSMDVKTQQGAQQTKAVPNNAQ 36
E L+ S+ + T+ G + T A+PNN++
Sbjct: 100 ERLEFANGSLHIDTENGTKLTMAIPNNSK 128
>pdb|3EHF|A Chain A, Crystal Structure Of Deskc In Complex With Amp-Pcp
pdb|3EHF|B Chain B, Crystal Structure Of Deskc In Complex With Amp-Pcp
pdb|3EHF|C Chain C, Crystal Structure Of Deskc In Complex With Amp-Pcp
pdb|3EHF|D Chain D, Crystal Structure Of Deskc In Complex With Amp-Pcp
Length = 197
Score = 25.8 bits (55), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 8 EHLKINRMSMDVKTQQGAQQTKAVPNNAQ 36
E L+ S+ + T+ G + T A+PNN++
Sbjct: 169 ERLEFANGSLHIDTENGTKLTXAIPNNSK 197
>pdb|1X4L|A Chain A, Solution Structure Of Lim Domain In Four And A Half Lim
Domains Protein 2
Length = 72
Score = 25.8 bits (55), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 61 WHEDCLKCGCCDCRLGEVGSTLYTKANLILC 91
WH DC C C L VG T+ + ILC
Sbjct: 31 WHNDCFNCK--KCSLSLVGRGFLTERDDILC 59
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 25.8 bits (55), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 101 STGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
++ C C E ++ + +YH +CF C QC
Sbjct: 6 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 41
>pdb|3EHH|A Chain A, Crystal Structure Of Deskc-H188v In Complex With Adp
pdb|3EHH|B Chain B, Crystal Structure Of Deskc-H188v In Complex With Adp
pdb|3EHJ|A Chain A, Crystal Structure Of Deskc-H188v In Complex With Amp-Pcp
pdb|3EHJ|B Chain B, Crystal Structure Of Deskc-H188v In Complex With Amp-Pcp
Length = 218
Score = 25.8 bits (55), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 8 EHLKINRMSMDVKTQQGAQQTKAVPNNAQ 36
E L+ S+ + T+ G + T A+PNN++
Sbjct: 190 ERLEFANGSLHIDTENGTKLTXAIPNNSK 218
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 25.8 bits (55), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 41 CAGCGKHITDRFLLKALDMYWHEDCL 66
CA CGK + + LD +WH+ C
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 25.8 bits (55), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 101 STGYCAACSKVIPAFEMVMRARNNVYHLECFACQQC 136
++ C C E ++ + +YH +CF C QC
Sbjct: 10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 45
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
0.326 0.137 0.454
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,995,751
Number of Sequences: 62578
Number of extensions: 143982
Number of successful extensions: 390
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 320
Number of HSP's gapped (non-prelim): 74
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 46 (22.3 bits)