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= psy10674
(138 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 63.5 bits (153), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 27/47 (57%), Positives = 35/47 (74%)
Query: 81 PRCHACDELIFVNEYTLAENKTFHVKHFCCYECDKELCNQSYIPVTE 127
PRC CDELIF NEYT AEN+ +H+KHFCC++CD L + Y+ V +
Sbjct: 4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVND 50
Score = 42.4 bits (98), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 43/100 (43%), Gaps = 30/100 (30%)
Query: 1 YTLAENKTFHVKHFCCYECDKKVQFENYT----------------------------GKI 32
YT AEN+ +H+KHFCC++CD + E Y ++
Sbjct: 18 YTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEV 77
Query: 33 TQSQESEVLWHP--QCFVCSTCDELLVDLMYFHYKGNVYC 70
+ + WH +CF+CS C + L+ + +G V+C
Sbjct: 78 QRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 117
>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 = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 4/80 (5%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHY--KGNVYCLRDYATML-DIPRCHACDELIFVNEYTL- 97
WH +C CS+C L D+ Y G + C DY + + C AC + I +E +
Sbjct: 26 WHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASELVMR 85
Query: 98 AENKTFHVKHFCCYECDKEL 117
A+ +H+K F C C L
Sbjct: 86 AQGNVYHLKCFTCSTCRNRL 105
Score = 33.5 bits (75), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 41 LWHPQCFVCSTCDELLVDLMYFHY-KGNVYCLRDYATML 78
++H +CF CSTC LV FHY G+++C D T L
Sbjct: 90 VYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTAL 128
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 4/80 (5%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHY--KGNVYCLRDYATML-DIPRCHACDELIFVNEYTL- 97
WH +C CS+C L D+ Y G + C DY + + C AC + I +E +
Sbjct: 28 WHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASELVMR 87
Query: 98 AENKTFHVKHFCCYECDKEL 117
A+ +H+K F C C L
Sbjct: 88 AQGNVYHLKCFTCSTCRNRL 107
Score = 33.1 bits (74), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 41 LWHPQCFVCSTCDELLVDLMYFHY-KGNVYCLRDYATML 78
++H +CF CSTC LV FHY G+++C D T L
Sbjct: 92 VYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTAL 130
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLDIPRCHACDELIFVNEYTL-AEN 100
WH C C+ C L D F G+VYC D+ +C AC + I + A++
Sbjct: 29 WHSSCLKCADCQMQLADRC-FSRAGSVYCKEDFFKRFGT-KCTACQQGIPPTQVVRKAQD 86
Query: 101 KTFHVKHFCCYECDKEL 117
+H+ F C C+++L
Sbjct: 87 FVYHLHCFACIICNRQL 103
Score = 25.8 bits (55), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 36 QESEVLWHPQCFVCSTCDELLV--DLMYFHYKGNVYCLRDYAT 76
+ + ++H CF C C+ L D Y G + C DY T
Sbjct: 83 KAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYET 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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 36/81 (44%), Gaps = 4/81 (4%)
Query: 42 WHPQCFVCSTCDELL--VDLMYFHYKGNVYCLRDYATMLDIPR-CHACDELIFVNEYTL- 97
WH C C C L V ++ G C RDY + C +CD+ I E T+
Sbjct: 25 WHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEMTMR 84
Query: 98 AENKTFHVKHFCCYECDKELC 118
++K +H++ F C C K C
Sbjct: 85 VKDKVYHLECFKCAACQKHFC 105
>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 = 0.010, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 41 LWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATML 78
L+H QCFVC+ C + + +++ ++G YC D+ +
Sbjct: 34 LYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 41 LWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLDIP 81
L+H QCFVC+ C + + +++ ++G YC D+ ML P
Sbjct: 30 LYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF-QMLFAP 69
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 16 CYECDKKVQFENYTGKITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYC 70
C++C E G++ ++ + WHP+CF C C E+L D+ + G C
Sbjct: 8 CHQCG-----EFIIGRVIKAMNNS--WHPECFRCDLCQEVLADIGFVKNAGRHLC 55
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 34.7 bits (78), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 7/55 (12%)
Query: 16 CYECDKKVQFENYTGKITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYC 70
C C++ V ENY + + +WHP+CFVC C +F G +C
Sbjct: 18 CGGCNRPV-LENYLSAM------DTVWHPECFVCGDCFTSFSTGSFFELDGRPFC 65
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 34.7 bits (78), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 41 LWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLDIP 81
L+H QCFVC+ C + + +++ ++G YC D+ ML P
Sbjct: 34 LYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF-QMLFAP 73
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 33.1 bits (74), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 7/66 (10%)
Query: 16 CYECDKKVQFENYTGKITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYA 75
C +C+K + +G IT + WH CFVC TC + L + + YC+ Y
Sbjct: 8 CVKCNKAIT----SGGITYQDQP---WHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYK 60
Query: 76 TMLDIP 81
+ P
Sbjct: 61 NFVSGP 66
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 32.3 bits (72), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 43 HPQCFVCSTCDELLVDLMYFHYKGNVYC 70
HP+CFVC+ C+ L YF +G +YC
Sbjct: 48 HPECFVCADCNLNLKQKGYFFVEGELYC 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 = 32.3 bits (72), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 41 LWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATML 78
L+H CFVC+ C + +++ ++G YC D+ +
Sbjct: 34 LYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLF 71
>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 = 0.26, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 40 VLWHPQCFVCSTCDELLVDLMYFHYKGNVYCL 71
+WH CF CS C +++ +F + YC+
Sbjct: 37 TVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCV 68
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 30.4 bits (67), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDY 74
WH CF+CS C++ L + KG YC+ Y
Sbjct: 29 WHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCY 61
>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 = 30.4 bits (67), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 7/56 (12%)
Query: 16 CYECDKKVQFENYTGKITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYCL 71
C +C K + TG +T ++ WH +CFVC+ C + L + YCL
Sbjct: 8 CVQCKKPIT----TGGVTYREQP---WHKECFVCTACRKQLSGQRFTARDDFAYCL 56
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 30.4 bits (67), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 1/57 (1%)
Query: 41 LWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLDIPRCHACDELIFVNEYTL 97
WH CF C+ C L + + + C + T D P+C C + I + +
Sbjct: 28 FWHDTCFRCAKCLHPLANETFVAKDNKILCNK-CTTREDSPKCKGCFKAIVAGDQNV 83
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 6/55 (10%)
Query: 16 CYECDKKVQFENYTGKITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYC 70
C +CDK+V F + + WH C C C + L + ++G YC
Sbjct: 3 CPKCDKEVYFAERVTSLGKD------WHRPCLKCEKCGKTLTSGGHAEHEGKPYC 51
Score = 25.4 bits (54), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 11/43 (25%), Positives = 20/43 (46%)
Query: 81 PRCHACDELIFVNEYTLAENKTFHVKHFCCYECDKELCNQSYI 123
P+C CD+ ++ E + K +H C +C K L + +
Sbjct: 1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHA 43
>pdb|3TSQ|A Chain A, Crystal Structure Of E. Coli Hypf With Atp And Carbamoyl
Phosphate
pdb|3TTD|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Cpp And
Carbamoyl Phosphate
Length = 658
Score = 30.0 bits (66), Expect = 0.40, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 5/42 (11%)
Query: 72 RDYATMLDIPRCHACDELIFVNEYTLAENKTFHVKHFCCYEC 113
R + M P C ACD+ EY ++ FH + C EC
Sbjct: 59 RPFTVMAAFPLCPACDK-----EYRDPLDRRFHAQPVACPEC 95
>pdb|3TSP|A Chain A, Crystal Structure Of E. Coli Hypf
pdb|3TSU|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Pnp And
Carbamoyl Phosphate
pdb|3TTC|A Chain A, Crystal Structure Of E. Coli Hypf With Adp And Carbamoyl
Phosphate
pdb|3TTF|A Chain A, Crystal Structure Of E. Coli Hypf With Amp And Carbamoyl
Phosphate
Length = 657
Score = 30.0 bits (66), Expect = 0.40, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 5/42 (11%)
Query: 72 RDYATMLDIPRCHACDELIFVNEYTLAENKTFHVKHFCCYEC 113
R + M P C ACD+ EY ++ FH + C EC
Sbjct: 59 RPFTVMAAFPLCPACDK-----EYRDPLDRRFHAQPVACPEC 95
>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 = 30.0 bits (66), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 3/77 (3%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLDIPRCHACDELIFVNEYT-LAEN 100
WH +C CS C L + F +VYC D+ +C AC I + A++
Sbjct: 29 WHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGT-KCAACQLGIPPTQVVRRAQD 86
Query: 101 KTFHVKHFCCYECDKEL 117
+H+ F C C ++L
Sbjct: 87 FVYHLHCFACVVCKRQL 103
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 30.0 bits (66), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYA 75
WH CF C+ C + L +G +YC YA
Sbjct: 59 WHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYA 92
Score = 29.6 bits (65), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 82 RCHACDELIFVNEYTLAENKTFHVKHFCCYECDKEL 117
+C AC + ++ E + K +H F C +C K L
Sbjct: 38 KCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL 73
>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 = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYA 75
WH CF C+ C + L +G +YC YA
Sbjct: 59 WHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYA 92
Score = 27.3 bits (59), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 82 RCHACDELIFVNEYTLAENKTFHVKHFCCYECDKEL 117
+C C + ++ E + K +H F C +C K L
Sbjct: 38 KCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL 73
>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 = 0.59, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 78 LDIPRCHACDELIFVNEYTLAENKTFHVKHFCCYECDKELCNQSY 122
+ +P C AC I A K +HV+HF C +C+K +
Sbjct: 3 MGVPICGACRRPI-EGRVVNAMGKQWHVEHFVCAKCEKPFLGHRH 46
Score = 28.9 bits (63), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 7/64 (10%)
Query: 16 CYECDKKVQFENYTGKITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYA 75
C C + ++ G++ + + WH + FVC+ C++ + ++ KG YC Y
Sbjct: 8 CGACRRPIE-----GRVVNAMGKQ--WHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYN 60
Query: 76 TMLD 79
+
Sbjct: 61 QLFG 64
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 28.9 bits (63), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 3/77 (3%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLDIPRCHACDELIFVNEYT-LAEN 100
WH +C CS C L + F +VYC D+ +C AC I + A++
Sbjct: 83 WHSKCLKCSDCHVPLAE-RCFSRGESVYCKDDFFKRFGT-KCAACQLGIPPTQVVRRAQD 140
Query: 101 KTFHVKHFCCYECDKEL 117
+H+ F C C ++L
Sbjct: 141 FVYHLHCFACVVCKRQL 157
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 28.9 bits (63), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 15/34 (44%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYA 75
WH CF C+ C + L G +YC YA
Sbjct: 138 WHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYA 171
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 83 CHACDELIFVNEYTLAENKTFHVKHFCCYECDKEL 117
C C + ++ E + K++H F C +C K L
Sbjct: 118 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSL 152
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 28.9 bits (63), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDY 74
WH CF C TC +L Y G YC DY
Sbjct: 38 WHVSCFKCQTCSVILTG-EYISKDGVPYCESDY 69
>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 = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHY--KGNVYCLRDYATM 77
WH +C CS+C L D+ Y G + C DY +
Sbjct: 28 WHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
>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 = 1.0, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 15/34 (44%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYA 75
WH CF C+ C + L G +YC YA
Sbjct: 31 WHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYA 64
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 83 CHACDELIFVNEYTLAENKTFHVKHFCCYECDKEL 117
C C + ++ E + K++H F C +C K L
Sbjct: 11 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSL 45
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHY--KGNVYCLRDYATML 78
WH +C CS+C L D+ Y G + C DY +
Sbjct: 84 WHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 122
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like
Pdz And Lim Domains Protein
Length = 90
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYC 70
WHP+ F C+ C + + + KG +YC
Sbjct: 47 WHPEEFNCAHCKNTMAYIGFVEEKGALYC 75
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human
Lim- Kinase 2 (limk2)
Length = 81
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 8/47 (17%)
Query: 38 SEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLDIPRCH 84
E +HP+CF C +C ++ D G+ Y L +AT L +CH
Sbjct: 33 GEFKYHPECFACMSCKVIIED-------GDAYALVQHAT-LYCGKCH 71
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 96 TLAENKTF---HVKHFCCYECDKEL 117
LA NK+ H+KHF ECDK L
Sbjct: 141 ALARNKSLNLKHIKHFILDECDKML 165
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 2 TLAENKTF---HVKHFCCYECDKKVQ 24
LA NK+ H+KHF ECDK ++
Sbjct: 141 ALARNKSLNLKHIKHFILDECDKMLE 166
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 96 TLAENKTF---HVKHFCCYECDKEL 117
LA NK+ H+KHF ECDK L
Sbjct: 141 ALARNKSLNLKHIKHFILDECDKML 165
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 2 TLAENKTF---HVKHFCCYECDKKVQ 24
LA NK+ H+KHF ECDK ++
Sbjct: 141 ALARNKSLNLKHIKHFILDECDKMLE 166
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 27.7 bits (60), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 23/54 (42%)
Query: 26 ENYTGKITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLD 79
E+ G + ++H CFVCSTC L ++ + YC Y L+
Sbjct: 13 EDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE 66
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 96 TLAENKTF---HVKHFCCYECDKEL 117
LA NK+ H+KHF ECDK L
Sbjct: 147 ALARNKSLNLKHIKHFILDECDKML 171
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 2 TLAENKTF---HVKHFCCYECDKKVQ 24
LA NK+ H+KHF ECDK ++
Sbjct: 147 ALARNKSLNLKHIKHFILDECDKMLE 172
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of
Human Fhl5 Protein
Length = 76
Score = 27.3 bits (59), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 5/63 (7%)
Query: 16 CYECDKKVQFENYTG-KITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDY 74
C C K + TG K Q+S+ WH +CF C C LV + ++C +
Sbjct: 8 CVACSKPI--SGLTGAKFICFQDSQ--WHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCG 63
Query: 75 ATM 77
+ M
Sbjct: 64 SGM 66
>pdb|2IYB|E Chain E, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|F Chain F, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|G Chain G, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|H Chain H, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
Length = 65
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 42 WHP--QCFVCSTCDELLVDLMYFHYKGNVYC 70
WH +CF+CS C + L+ + +G V+C
Sbjct: 26 WHASTECFLCSCCSKCLIGQKFMPVEGMVFC 56
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl
Terminal Lim Domain Protein 1
Length = 79
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 19/39 (48%)
Query: 43 HPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATMLDIP 81
HP+C+VC+ C L +F + +YC + + P
Sbjct: 38 HPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGP 76
>pdb|3N37|A Chain A, Ribonucleotide Reductase Dimanganese(Ii)-Nrdf From
Escherichia Coli
pdb|3N38|A Chain A, Ribonucleotide Reductase Nrdf From Escherichia Coli Soaked
With Ferrous Ions
pdb|3N39|B Chain B, Ribonucleotide Reductase Dimanganese(Ii)-Nrdf From
Escherichia Coli In Complex With Nrdi
pdb|3N39|A Chain A, Ribonucleotide Reductase Dimanganese(Ii)-Nrdf From
Escherichia Coli In Complex With Nrdi
pdb|3N3A|B Chain B, Ribonucleotide Reductase Dimanganese(Ii)-Nrdf From
Escherichia Coli In Complex With Reduced Nrdi
pdb|3N3A|A Chain A, Ribonucleotide Reductase Dimanganese(Ii)-Nrdf From
Escherichia Coli In Complex With Reduced Nrdi
pdb|3N3B|B Chain B, Ribonucleotide Reductase Dimanganese(Ii)-Nrdf From
Escherichia Coli In Complex With Reduced Nrdi With A
Trapped Peroxide
pdb|3N3B|A Chain A, Ribonucleotide Reductase Dimanganese(Ii)-Nrdf From
Escherichia Coli In Complex With Reduced Nrdi With A
Trapped Peroxide
Length = 319
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 105 VKHFCCYECDKELCNQSYIPVTESRPGQDSPG 136
VK F CY +K L N Y P+ + + +P
Sbjct: 250 VKAFLCYNANKALMNLGYEPLFPAEMAEVNPA 281
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial
Protein Lost In Neoplasm
Length = 91
Score = 26.2 bits (56), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 6/55 (10%)
Query: 16 CYECDKKVQFENYTGKITQSQESEVLWHPQCFVCSTCDELLVDLMYFHYKGNVYC 70
C EC K V + + ++ ++H CF CS C+ L Y G +YC
Sbjct: 18 CVECQKTVY------PMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYC 66
Score = 26.2 bits (56), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 83 CHACDELIFVNEYTLAENKTFHVKHFCCYECDKELCNQSYIPV 125
C C + ++ E LA + FH+ F C C+ +L +Y +
Sbjct: 18 CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASL 60
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of
MlpCRP3
Length = 58
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 15/34 (44%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYA 75
WH CF C+ C + L G +YC YA
Sbjct: 22 WHKTCFRCAICGKSLESTNVTDKDGELYCKVCYA 55
>pdb|1QDM|A Chain A, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
Vacuolar Aspartic Proteinase.
pdb|1QDM|B Chain B, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
Vacuolar Aspartic Proteinase.
pdb|1QDM|C Chain C, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
Vacuolar Aspartic Proteinase
Length = 478
Score = 25.8 bits (55), Expect = 8.1, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 81 PRCHACDELIFVNEYTLAENKTFHVKHFCCYECDKELCNQSYIPVTESRPGQDSPGS 137
P C AC+ + + LA+NKT + + +LCN+ P+ ES S GS
Sbjct: 350 PMCSACEMAVVWMQNQLAQNKTQDL----ILDYVNQLCNRLPSPMGESAVDCGSLGS 402
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 25.8 bits (55), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 9/37 (24%), Positives = 16/37 (43%)
Query: 42 WHPQCFVCSTCDELLVDLMYFHYKGNVYCLRDYATML 78
WH +C VC+ C L + + YC+ + +
Sbjct: 37 WHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73
>pdb|2COR|A Chain A, Solution Structure Of The Third Lim Domain Of Particularly
Interesting New Cys-His Protein
Length = 79
Score = 25.4 bits (54), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 82 RCHACDELIFVNEYTLAENKTFHVKHFCCYECDKEL 117
+CHA I + + +N +H HF C C KEL
Sbjct: 20 KCHA----IIDEQPLIFKNDPYHPDHFNCANCGKEL 51
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
0.325 0.138 0.471
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,301,897
Number of Sequences: 62578
Number of extensions: 153325
Number of successful extensions: 514
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 414
Number of HSP's gapped (non-prelim): 110
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 46 (22.3 bits)