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= psy11345
(282 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz
And Lim Domains Protein
Length = 90
Score = 78.6 bits (192), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 35/74 (47%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 99 VLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEED 158
V +++ G R P+C C Q IRGPF+ ALGK W P+ F C CK + IGFVEE
Sbjct: 13 VQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCA--HCKNTMAYIGFVEEK 70
Query: 159 SGLYCEFCFEQYLA 172
LYCE C+E++ A
Sbjct: 71 GALYCELCYEKFFA 84
>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 = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 4/92 (4%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLF--TTKCFACGFPIE 231
L A+ ++H C C+ C G+ + + G+ C ND+ LF + C ACG I
Sbjct: 19 LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIP 78
Query: 232 AGDRWVEALNNNYHSLCFNCSSPSSPALSGAK 263
A + + A N YH CF CS+ + + G +
Sbjct: 79 ASELVMRAQGNVYHLKCFTCSTCRNRLVPGDR 110
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 49/121 (40%), Gaps = 23/121 (19%)
Query: 114 CGQCYQQIRGPFIT-ALGKIWCPDHFLCVR-PQCKRPLQDIGFVE-EDSGLY-------- 162
C C +I F+ A+ W H C++ C+ L DIG SG+
Sbjct: 6 CAGCGGKIADRFLLYAMDSYW---HSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 62
Query: 163 -------CEFCFEQYLAPD-CLNAIGKHYHPECFTCAYC-GKLFGNNPFFLEEGLPYCEN 213
C C + A + + A G YH +CFTC+ C +L + F G +CE+
Sbjct: 63 LFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEH 122
Query: 214 D 214
D
Sbjct: 123 D 123
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 4/92 (4%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLF--TTKCFACGFPIE 231
L A+ ++H C C+ C G+ + + G+ C ND+ LF + C ACG I
Sbjct: 21 LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIP 80
Query: 232 AGDRWVEALNNNYHSLCFNCSSPSSPALSGAK 263
A + + A N YH CF CS+ + + G +
Sbjct: 81 ASELVMRAQGNVYHLKCFTCSTCRNRLVPGDR 112
Score = 31.6 bits (70), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 49/121 (40%), Gaps = 23/121 (19%)
Query: 114 CGQCYQQIRGPFIT-ALGKIWCPDHFLCVR-PQCKRPLQDIGFVE-EDSGLY-------- 162
C C +I F+ A+ W H C++ C+ L DIG SG+
Sbjct: 8 CAGCGGKIADRFLLYAMDSYW---HSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 64
Query: 163 -------CEFCFEQYLAPD-CLNAIGKHYHPECFTCAYC-GKLFGNNPFFLEEGLPYCEN 213
C C + A + + A G YH +CFTC+ C +L + F G +CE+
Sbjct: 65 LFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEH 124
Query: 214 D 214
D
Sbjct: 125 D 125
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 46/108 (42%), Gaps = 1/108 (0%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
C C + L L A+ +H+H +C C+ C F E + YC++D+ F TK
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGTK 121
Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNT 270
C AC I A + YH CF C +G + Y +++
Sbjct: 122 CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDS 169
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 32/123 (26%), Positives = 49/123 (39%), Gaps = 21/123 (17%)
Query: 111 VPLCGQCYQQIRGPFI-TALGKIWCPDHFLCVR-PQCKRPLQDIGFVEEDSGLYCEFCFE 168
+P+C C Q I FI AL + W H C++ C PL + F +S +YC+ F
Sbjct: 60 IPMCAGCDQHILDRFILKALDRHW---HSKCLKCSDCHVPLAERCFSRGES-VYCKDDFF 115
Query: 169 QYLAPDCL-------------NAIGKHYHPECFTCAYCGKLF--GNNPFFLEEGLPYCEN 213
+ C A YH CF C C + G+ + +E+ C+
Sbjct: 116 KRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKA 175
Query: 214 DWN 216
D+
Sbjct: 176 DYE 178
>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 = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 46/108 (42%), Gaps = 1/108 (0%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
C C + L L A+ +H+H +C C+ C F E + YC++D+ F TK
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGTK 67
Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNT 270
C AC I A + YH CF C +G + Y +++
Sbjct: 68 CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDS 115
Score = 35.4 bits (80), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 32/123 (26%), Positives = 49/123 (39%), Gaps = 21/123 (17%)
Query: 111 VPLCGQCYQQIRGPFI-TALGKIWCPDHFLCVR-PQCKRPLQDIGFVEEDSGLYCEFCFE 168
+P+C C Q I FI AL + W H C++ C PL + F +S +YC+ F
Sbjct: 6 IPMCAGCDQHILDRFILKALDRHW---HSKCLKCSDCHVPLAERCFSRGES-VYCKDDFF 61
Query: 169 QYLAPDCL-------------NAIGKHYHPECFTCAYCGKLF--GNNPFFLEEGLPYCEN 213
+ C A YH CF C C + G+ + +E+ C+
Sbjct: 62 KRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKA 121
Query: 214 DWN 216
D+
Sbjct: 122 DYE 124
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 34/120 (28%), Positives = 49/120 (40%), Gaps = 7/120 (5%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
C C + L L + +H+H C CA C + F G YC+ D+ F TK
Sbjct: 9 CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADR-CFSRAGSVYCKEDFFKRFGTK 67
Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCLE 282
C AC I +A + YH CF C + +G + Y ++ G +VC E
Sbjct: 68 CTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMED------GRLVCKE 121
>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 = 44.7 bits (104), Expect = 6e-05, Method: Composition-based stats.
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
VP+CG C + I G + A+GK W +HF+C + C++P E YCE + Q
Sbjct: 5 VPICGACRRPIEGRVVNAMGKQWHVEHFVCAK--CEKPFLGHRHYERKGLAYCETHYNQ 61
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/44 (45%), Positives = 27/44 (61%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
+NA+GK +H E F CA C K F + + +GL YCE +N LF
Sbjct: 20 VNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF 63
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 172 APDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT 220
A +N+ G+ YH +CF CA C + F F+ EG YCE+D+ LF
Sbjct: 24 AEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 172 APDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT 220
A +N+ G+ YH +CF CA C + F F+ EG YCE+D+ LF
Sbjct: 20 AEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 68
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 172 APDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT 220
A +N+ G+ YH +CF CA C + F F+ EG YCE+D+ LF
Sbjct: 24 AEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72
>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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 39/92 (42%), Gaps = 4/92 (4%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLFTTK--CFACGFPIE 231
L AI +++H +C +C CG G + + G C D+ LF C +C I
Sbjct: 18 LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIR 77
Query: 232 AGDRWVEALNNNYHSLCFNCSSPSSPALSGAK 263
A + + + YH CF C++ G +
Sbjct: 78 AYEMTMRVKDKVYHLECFKCAACQKHFCVGDR 109
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim
Protein 3
Length = 80
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 162 YCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
+C C E+ L A+ K +H CF C C + + ++G+PYCE+D++ F +
Sbjct: 17 HCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL-TGEYISKDGVPYCESDYHAQFGS 75
>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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 27/49 (55%)
Query: 172 APDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT 220
A +N+ G+ YH CF CA C + F F+ EG YCE+D+ LF
Sbjct: 24 AERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLFA 72
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 36/91 (39%), Gaps = 5/91 (5%)
Query: 137 HFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKL 196
H P + Q G E+ C C + A + + GK +H CF CA CGK
Sbjct: 18 HRPTTNPNTSKFAQKFGGAEK-----CSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKS 72
Query: 197 FGNNPFFLEEGLPYCENDWNDLFTTKCFACG 227
+ +EG YC+ + F K F G
Sbjct: 73 LESTTLTEKEGEIYCKGCYAKNFGPKGFGYG 103
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 36/91 (39%), Gaps = 5/91 (5%)
Query: 137 HFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKL 196
H P + Q G E+ C C + A + + GK +H CF CA CGK
Sbjct: 18 HRPTTNPNTSKFAQKFGGAEK-----CSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKS 72
Query: 197 FGNNPFFLEEGLPYCENDWNDLFTTKCFACG 227
+ +EG YC+ + F K F G
Sbjct: 73 LESTTLTEKEGEIYCKGCYAKNFGPKGFGYG 103
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
L+A+ +HPECF C C F FF +G P+CE
Sbjct: 30 LSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCE 66
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 2/58 (3%)
Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
P CG C + + +++A+ +W P+ F+C C F E D +CE +
Sbjct: 16 PKCGGCNRPVLENYLSAMDTVWHPECFVC--GDCFTSFSTGSFFELDGRPFCELHYHH 71
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 161 LYCEFCF--EQYLAPDCLNAIGKHYHPECFTCAYC 193
LY CF +Q++ + ++A+GK YHP+CF CA C
Sbjct: 13 LYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVC 47
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 214 DWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
D+ L+ T+CF+C IE V AL YH CF C+
Sbjct: 9 DYQRLYGTRCFSCDQFIEG--EVVSALGKTYHPDCFVCA 45
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPL 149
C C Q I G ++ALGK + PD F+C C+ P
Sbjct: 18 CFSCDQFIEGEVVSALGKTYHPDCFVCA--VCRLPF 51
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 32/76 (42%), Gaps = 2/76 (2%)
Query: 181 KHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEAL 240
+ +H CF CA C N F ++ C + KC C I AGD+ VE
Sbjct: 27 RFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQNVEYK 86
Query: 241 NNNYHSLCFNCSSPSS 256
+H CF S PSS
Sbjct: 87 GTVWHKDCF--SGPSS 100
>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 = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEG 207
C+ C E+Y+ L A KHYHP C C CG++F +G
Sbjct: 8 CDSC-EKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQG 51
>pdb|2DN6|A Chain A, Solution Structure Of The Ph Domain Of Kiaa0640 Protein
From Human
Length = 115
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 218 LFTTKCFACGFPIEAGDR-----WVEALNNNYHSLCFNCSSPSS 256
LF KCF F I A D+ W++A+++ H L S PSS
Sbjct: 71 LFLVKCFDKTFEISASDKKKKQEWIQAIHSTIHLLKLGSSGPSS 114
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 35.0 bits (79), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 19/38 (50%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEN 213
+ A K+ HPECF CA C +F EG YCE
Sbjct: 40 VKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCET 77
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 110 RVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE 164
R+PLC +C I G + A K P+ F+C C L+ G+ + LYCE
Sbjct: 24 RMPLCDKCGSGIVGAVVKARDKYRHPECFVCA--DCNLNLKQKGYFFVEGELYCE 76
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 33/80 (41%), Gaps = 5/80 (6%)
Query: 143 PQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPF 202
P R Q +G + C C + A + + GK +H CF CA CGK +
Sbjct: 103 PNASRMAQKVGGSDG-----CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTL 157
Query: 203 FLEEGLPYCENDWNDLFTTK 222
++G YC+ + F K
Sbjct: 158 ADKDGEIYCKGCYAKNFGPK 177
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
C C + A + + GK +H CF CA CGK + ++G YC+ + F K
Sbjct: 11 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 70
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 4/72 (5%)
Query: 102 PQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGL 161
Q + P CGQ + GK W F C + C + L+ ++D +
Sbjct: 2 AQKVGGSDGCPRCGQAV--YAAEKVIGAGKSWHKSCFRCAK--CGKSLESTTLADKDGEI 57
Query: 162 YCEFCFEQYLAP 173
YC+ C+ + P
Sbjct: 58 YCKGCYAKNFGP 69
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 34.3 bits (77), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA 172
C QC + I G I A+ W P+ F C C+ L DIGFV+ C C + A
Sbjct: 8 CHQCGEFIIGRVIKAMNNSWHPECFRC--DLCQEVLADIGFVKNAGRHLCRPCHNREKA 64
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/44 (25%), Positives = 20/44 (45%)
Query: 169 QYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
+++ + A+ +HPECF C C ++ + F G C
Sbjct: 13 EFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCR 56
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 33.9 bits (76), Expect = 0.094, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLE 205
C C Q + L A+GK YHP CFTC C + PF ++
Sbjct: 18 CATC-SQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVD 59
Score = 28.9 bits (63), Expect = 3.8, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGF-VEEDSGLYC 163
C C Q I + A+GK + P F CV C R L I F V+ S ++C
Sbjct: 18 CATCSQPILDRILRAMGKAYHPGCFTCV--VCHRGLDGIPFTVDATSQIHC 66
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl Terminal
Lim Domain Protein 1
Length = 79
Score = 32.7 bits (73), Expect = 0.23, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 181 KHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
+H HPEC+ C CG F E YCE
Sbjct: 35 RHRHPECYVCTDCGTNLKQKGHFFVEDQIYCE 66
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEND-WNDLFTT 221
C C ++ + + ++GK +H C C CGK + EG PYC + ++ +F
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 222 KCFACG 227
K F G
Sbjct: 63 KGFGRG 68
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 163 CEFCFEQYLAPD-CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYC 211
C+ CF+ +A D + G +H +CFTC+ C ++ G FF + YC
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYC 67
Score = 27.3 bits (59), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 222 KCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
KC C I AGD+ VE +H CF CS
Sbjct: 17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCS 47
>pdb|1QUL|A Chain A, Phosphate-Binding Protein Mutant With Asp 137 Replaced By
Thr Complex With Chlorine And Phosphate
Length = 321
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 129 LGKI--WCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA 172
LGKI W + + P K P Q+I V +G F F YLA
Sbjct: 105 LGKIKKWDDEAIAKLNPGLKLPSQNIAVVRRATGSGTSFVFTSYLA 150
>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 = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 183 YHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
+H ECF C C K F + YC N + DL+ +
Sbjct: 27 WHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYAS 65
>pdb|1QUK|A Chain A, Phosphate-Binding Protein Mutant With Asp 137 Replaced By
Asn Complex With Phosphate
Length = 321
Score = 31.6 bits (70), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 129 LGKI--WCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA 172
LGKI W + + P K P Q+I V +G F F YLA
Sbjct: 105 LGKIKKWDDEAIAKLNPGLKLPSQNIAVVRRANGSGTSFVFTSYLA 150
>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 = 0.60, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 19/40 (47%)
Query: 183 YHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
+H CF C+YC + G YC+ +N LF +K
Sbjct: 38 FHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK 77
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3
Length = 58
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
C C + A + + GK +H CF CA CGK + ++G YC+
Sbjct: 2 CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCK 51
>pdb|1FN9|A Chain A, Crystal Structure Of The Reovirus Outer Capsid Protein
Sigma 3
pdb|1FN9|B Chain B, Crystal Structure Of The Reovirus Outer Capsid Protein
Sigma 3
Length = 365
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 2 NGHDGKQLVNKQYNSPVGIYS-EESIAETLSAQAEVLAGG 40
NGH L+N + V IYS +E +T+SAQ +++ G
Sbjct: 7 NGHQVVDLINNAFEGRVSIYSAQEGWDKTISAQPDMMVCG 46
>pdb|1JMU|G Chain G, Crystal Structure Of The Reovirus Mu1SIGMA3 COMPLEX
pdb|1JMU|H Chain H, Crystal Structure Of The Reovirus Mu1SIGMA3 COMPLEX
pdb|1JMU|I Chain I, Crystal Structure Of The Reovirus Mu1SIGMA3 COMPLEX
Length = 366
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 2 NGHDGKQLVNKQYNSPVGIYS-EESIAETLSAQAEVLAGG 40
NGH L+N + V IYS +E +T+SAQ +++ G
Sbjct: 8 NGHQIVDLINNAFEGRVSIYSAQEGWDKTISAQPDMMVCG 47
>pdb|2CSE|S Chain S, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|D Chain D, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|E Chain E, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|F Chain F, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|M Chain M, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|N Chain N, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|O Chain O, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|G Chain G, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|H Chain H, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
pdb|2CSE|I Chain I, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed
By Electron And Image Reconstruction Of The Virion At
7.0-A Resolution
Length = 365
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 2 NGHDGKQLVNKQYNSPVGIYS-EESIAETLSAQAEVLAGG 40
NGH L+N + V IYS +E +T+SAQ +++ G
Sbjct: 7 NGHQIVDLINNAFEGRVSIYSAQEGWDKTISAQPDMMVCG 46
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 181 KHYHPECFTCAYCGKLFG-NNPFFLEEGLPYCEND 214
K YH ECF CA C K F + + L CE D
Sbjct: 32 KVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQD 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 = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 181 KHYHPECFTCAYCGKLFG-NNPFFLEEGLPYCEND 214
K YH ECF CA C K F + + L CE D
Sbjct: 30 KVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQD 64
>pdb|1J2O|A Chain A, Structure Of Flin2, A Complex Containing The N-Terminal
Lim Domain Of Lmo2 And Ldb1-Lid
Length = 114
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFG--NNPFFLEEGLPYCENDW 215
L AI +++H +C +C CG G + + G C D+
Sbjct: 19 LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDY 60
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
L G+ +H CF C+ C + G+ F ++G YC + + F +
Sbjct: 22 LEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAS 67
Score = 27.3 bits (59), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 130 GKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA 172
G+ W FLC C++PL FV + YC C+E A
Sbjct: 26 GQTWHEHCFLCS--GCEQPLGSRSFVPDKGAHYCVPCYENKFA 66
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 2/62 (3%)
Query: 111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQY 170
P C +C + + +T + W + +C C+ PL F D YC CF +
Sbjct: 15 APRCARCSKTLTQGGVTYRDQPWHRECLVCT--GCQTPLAGQQFTSRDEDPYCVACFGEL 72
Query: 171 LA 172
A
Sbjct: 73 FA 74
>pdb|2EHE|A Chain A, Solution Structure Of The First Lim Domain From Human Four
And A Half Lim Domains Protein 3
Length = 82
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 10/41 (24%), Positives = 20/41 (48%)
Query: 181 KHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
+H+H CF C C + + PF ++ C + + F++
Sbjct: 37 RHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSS 77
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 220 TTKCFACGFPIEA--GDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQN 269
++ C AC PI G +++ ++ +HS CFNC S + K + TQN
Sbjct: 5 SSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLV--GKGFLTQN 54
>pdb|2DLQ|A Chain A, Solution Structure Of The Tandem Four Zf-C2h2 Domain
Repeats Of Murine Gli-Kruppel Family Member Hkr3
Length = 124
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 1/64 (1%)
Query: 158 DSGLYCEFCFEQYLAPDCLNAIG-KHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWN 216
SG+ C C +++L+ L KH + F C CGK + LE C N
Sbjct: 5 SSGVECPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSE 64
Query: 217 DLFT 220
+FT
Sbjct: 65 QVFT 68
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA 172
C +C + I IT + W D F+CV C + L F + YC C++ +++
Sbjct: 8 CVKCNKAITSGGITYQDQPWHADCFVCVT--CSKKLAGQRFTAVEDQYYCVDCYKNFVS 64
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
0.319 0.138 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,067,798
Number of Sequences: 62578
Number of extensions: 376967
Number of successful extensions: 798
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 704
Number of HSP's gapped (non-prelim): 102
length of query: 282
length of database: 14,973,337
effective HSP length: 98
effective length of query: 184
effective length of database: 8,840,693
effective search space: 1626687512
effective search space used: 1626687512
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)