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= psy16551
(281 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 122 bits (307), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 82/174 (47%), Positives = 104/174 (59%), Gaps = 10/174 (5%)
Query: 95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
GK C C V+ AE+V +GS +H+ CF C C K LDS D +IYCK+CYGKK
Sbjct: 7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65
Query: 155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
+GP G G G+G L TD G+ +E ++RP NPN + + + G +GCPRCG A
Sbjct: 66 YGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPT-NPNASRMAQKVGGSDGCPRCGQA 124
Query: 208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK 261
V+AAE+ + G WHK CF C C + L+S D D EIYCK CY KNFGPK
Sbjct: 125 VYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPK 177
Score = 73.9 bits (180), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 36/85 (42%), Positives = 50/85 (58%), Gaps = 3/85 (3%)
Query: 75 RENNAPRTTVIDTAKI--KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL 132
E + R T + +++ K GCPRCG V+AAE+V+ G WH+ CF+C C K+L
Sbjct: 93 EEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSL 152
Query: 133 DSINACDGPDKDIYCKTCYGKKWGP 157
+S D D +IYCK CY K +GP
Sbjct: 153 ESTTLAD-KDGEIYCKGCYAKNFGP 176
>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 = 91.7 bits (226), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 46/94 (48%), Positives = 57/94 (60%), Gaps = 3/94 (3%)
Query: 176 EDEISANRPFYNPNTTSIMARKG--EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKR 233
E S +RP NPNT+ + G E C RCG +V+AAE+ + G WHK CF C C +
Sbjct: 12 ESSPSPHRPTTNPNTSKFAQKFGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGK 71
Query: 234 PLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH 267
L+S + + EIYCK CY KNFGPKGFGYG
Sbjct: 72 SLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYGQ 104
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 38/90 (42%), Positives = 55/90 (61%), Gaps = 3/90 (3%)
Query: 82 TTVIDTAKI--KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACD 139
TT +T+K K + C RCG V+AAE+V+ G WH+ CF+C C K+L+S +
Sbjct: 21 TTNPNTSKFAQKFGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTE 80
Query: 140 GPDKDIYCKTCYGKKWGPHGYGFAAGSGFL 169
+ +IYCK CY K +GP G+G+ G+G L
Sbjct: 81 -KEGEIYCKGCYAKNFGPKGFGYGQGAGAL 109
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 89.0 bits (219), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 45/94 (47%), Positives = 56/94 (59%), Gaps = 3/94 (3%)
Query: 176 EDEISANRPFYNPNTTSIMARKG--EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKR 233
E S +RP NPNT+ + G E C CG +V+AAE+ + G WHK CF C C +
Sbjct: 12 ESSPSPHRPTTNPNTSKFAQKFGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGK 71
Query: 234 PLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH 267
L+S + + EIYCK CY KNFGPKGFGYG
Sbjct: 72 SLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYGQ 104
Score = 74.3 bits (181), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 37/90 (41%), Positives = 54/90 (60%), Gaps = 3/90 (3%)
Query: 82 TTVIDTAKI--KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACD 139
TT +T+K K + C CG V+AAE+V+ G WH+ CF+C C K+L+S +
Sbjct: 21 TTNPNTSKFAQKFGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTE 80
Query: 140 GPDKDIYCKTCYGKKWGPHGYGFAAGSGFL 169
+ +IYCK CY K +GP G+G+ G+G L
Sbjct: 81 -KEGEIYCKGCYAKNFGPKGFGYGQGAGAL 109
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 77.8 bits (190), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 46/71 (64%), Gaps = 4/71 (5%)
Query: 194 MARK---GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYC 250
MA+K +GCPRCG AV+AAE+ + G WHK CF C C + L+S D D EIYC
Sbjct: 1 MAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYC 59
Query: 251 KACYGKNFGPK 261
K CY KNFGPK
Sbjct: 60 KGCYAKNFGPK 70
Score = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 32/61 (52%), Positives = 41/61 (67%), Gaps = 1/61 (1%)
Query: 97 GCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
GCPRCG V+AAE+V+ G WH+ CF+C C K+L+S D D +IYCK CY K +G
Sbjct: 10 GCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFG 68
Query: 157 P 157
P
Sbjct: 69 P 69
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine-
Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 71.2 bits (173), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 36/76 (47%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
G C CG V+ AE+V G +HR CF C C K LDS D ++YCK+CYGKK
Sbjct: 7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65
Query: 155 WGPHGYGFAAGSGFLQ 170
+GP GYG+ G+G L
Sbjct: 66 YGPKGYGYGQGAGTLN 81
Score = 67.4 bits (163), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 33/76 (43%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKN 257
G C CG V+ AE+ G +H+ CF C VC++ LDS D E+YCK+CYGK
Sbjct: 7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65
Query: 258 FGPKGFGYGHSPTLVS 273
+GPKG+GYG ++
Sbjct: 66 YGPKGYGYGQGAGTLN 81
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3
Length = 58
Score = 65.9 bits (159), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/58 (51%), Positives = 38/58 (65%), Gaps = 1/58 (1%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
CPRCG +V+AAE+ + G WHK CF C +C + L+S D D E+YCK CY KNF
Sbjct: 2 CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTD-KDGELYCKVCYAKNF 58
Score = 65.1 bits (157), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 29/56 (51%), Positives = 38/56 (67%), Gaps = 1/56 (1%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK 153
CPRCG V+AAE+V+ G WH+ CF+C C K+L+S N D D ++YCK CY K
Sbjct: 2 CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTD-KDGELYCKVCYAK 56
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 34/64 (53%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
CP+C V+ AE+V + G +WHR C KC C KTL S + K CY +GP
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 158 HGYG 161
G+G
Sbjct: 63 KGFG 66
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 32/66 (48%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
CP+C V+ AE+ + G WH+ C C C + L S + K CY FGP
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 261 KGFGYG 266
KGFG G
Sbjct: 63 KGFGRG 68
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3
Length = 60
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
G C C V+ AE++ G +H+ CF C C K LDS + +IYCK CYG++
Sbjct: 1 GAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTV-AAHESEIYCKVCYGRR 59
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
G C C V+ AE+ G +HK CF C C++ LDS + EIYCK CYG+
Sbjct: 1 GAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTV-AAHESEIYCKVCYGR 58
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
CP+C V+ AE+V + G +WH+ C KC C+KTL + K K CY +G
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG 70
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 26/59 (44%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
CP+C V+ AE+ + G WHK C C C + L + K K CY FG
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG 70
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 50/142 (35%), Gaps = 42/142 (29%)
Query: 96 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKD-IYCKTCYGKK 154
K C CGG + + A S WH +C KC C L I I C+ Y +
Sbjct: 4 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 63
Query: 155 WGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQ 214
+G G C CG ++ A+E
Sbjct: 64 FGNSG----------------------------------------ACSACGQSIPASELV 83
Query: 215 L-AKGTMWHKQCFSCNVCKRPL 235
+ A+G ++H +CF+C+ C+ L
Sbjct: 84 MRAQGNVYHLKCFTCSTCRNRL 105
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSV-LACDGPDKEIYCKACYGKNFG 259
C CGG + A + WH +C C+ C+ L + + I C+ Y + FG
Sbjct: 6 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 65
Query: 260 PKG 262
G
Sbjct: 66 NSG 68
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 50/142 (35%), Gaps = 42/142 (29%)
Query: 96 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKD-IYCKTCYGKK 154
K C CGG + + A S WH +C KC C L I I C+ Y +
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
Query: 155 WGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQ 214
+G G C CG ++ A+E
Sbjct: 66 FGNSG----------------------------------------ACSACGQSIPASELV 85
Query: 215 L-AKGTMWHKQCFSCNVCKRPL 235
+ A+G ++H +CF+C+ C+ L
Sbjct: 86 MRAQGNVYHLKCFTCSTCRNRL 107
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSV-LACDGPDKEIYCKACYGKNFG 259
C CGG + A + WH +C C+ C+ L + + I C+ Y + FG
Sbjct: 8 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 67
Query: 260 PKG 262
G
Sbjct: 68 NSG 70
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein
Lost In Neoplasm
Length = 91
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 4/80 (5%)
Query: 89 KIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 148
K +A + C C V+ E++LA +H CF+C CN L S+ IYCK
Sbjct: 9 KFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKL-SLGTYASLHGRIYCK 67
Query: 149 TCYGKKW---GPHGYGFAAG 165
+ + + G + GF +G
Sbjct: 68 PHFNQLFKSKGNYDEGFGSG 87
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 199 EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
E C C V+ E+ LA ++H CF C+ C L S+ IYCK + + F
Sbjct: 16 ETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKL-SLGTYASLHGRIYCKPHFNQLF 74
Query: 259 GPKGF---GYGHSPT 270
KG G+G P+
Sbjct: 75 KSKGNYDEGFGSGPS 89
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 35/65 (53%), Gaps = 7/65 (10%)
Query: 199 EGCPRCGG---AVFAAEQQLA-KGTMWHKQCFSCNVCKRPLDS-VLACDGPDKEIYCKAC 253
E P+C G A+ A +Q + KGT+WHK CF+C+ CK+ + + G D YC C
Sbjct: 13 EDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGED--FYCVTC 70
Query: 254 YGKNF 258
+ F
Sbjct: 71 HETKF 75
Score = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 5/61 (8%)
Query: 99 PRCGG----VVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
P+C G +V + V KG+ WH+ CF C +C + + + + +D YC TC+ K
Sbjct: 16 PKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGT-GSFFPKGEDFYCVTCHETK 74
Query: 155 W 155
+
Sbjct: 75 F 75
>pdb|2CO8|A Chain A, Solution Structures Of The Lim Domain Of Human Nedd9
Interacting Protein With Calponin Homology And Lim
Domains
Length = 82
Score = 35.8 bits (81), Expect = 0.029, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 91 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL 132
+A G C CG ++ E++ G +HR CF+C C TL
Sbjct: 11 EAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATL 52
Score = 32.0 bits (71), Expect = 0.36, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 195 ARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL 235
A G+ C CG ++ E+ G +H+ CF C+ C+ L
Sbjct: 12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATL 52
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 34.7 bits (78), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 200 GCPRCGGAVFAAEQQLA-KGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKN 257
GC C + +++ KG+ WH+ CF C+ C++P+ + D + +C CY K
Sbjct: 7 GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQ 64
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 97 GCPRCGGVVFAAEQVLA-KGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKW 155
GC C + + + KGS WH CF C C + + + + D +C CY K+
Sbjct: 7 GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQ- 64
Query: 156 GPHGYGFAAG 165
H G ++G
Sbjct: 65 --HASGPSSG 72
>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 = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 99 PRCGG---VVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK 153
PRC G ++F+ E A+ WH K F C DC+ L DK + CK CY K
Sbjct: 4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPV-CKPCYVK 60
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 4/61 (6%)
Query: 202 PRCGGA---VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
PRC G +F+ E A+ WH + F C C L + DK + CK CY KN
Sbjct: 4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPV-CKPCYVKNH 62
Query: 259 G 259
Sbjct: 63 A 63
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 218 GTMWHKQCFSCNVCKRPLDSVLACDGPDK-EIYCKACYGKNF 258
G WH+ CF C+ C++PL S PDK YC CY F
Sbjct: 26 GQTWHEHCFLCSGCEQPLGSRSFV--PDKGAHYCVPCYENKF 65
Score = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 104 VVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDI-YCKTCYGKKW 155
V+ + ++ G WH CF C C + L S + PDK YC CY K+
Sbjct: 15 VMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFV--PDKGAHYCVPCYENKF 65
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 45/138 (32%), Gaps = 43/138 (31%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
C C + + A WH KC KC DC+ L C + +YCK + K++G
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDFFKRFGT 120
Query: 158 HGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAK 217
G P T + + A+
Sbjct: 121 KCAACQLGI---------------------PPTQVV--------------------RRAQ 139
Query: 218 GTMWHKQCFSCNVCKRPL 235
++H CF+C VCKR L
Sbjct: 140 DFVYHLHCFACVVCKRQL 157
Score = 30.8 bits (68), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 221 WHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK 261
WH +C C+ C PL C + +YCK + K FG K
Sbjct: 83 WHSKCLKCSDCHVPLAE--RCFSRGESVYCKDDFFKRFGTK 121
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 18/40 (45%)
Query: 96 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSI 135
K C CGG + + A S WH +C KC C L I
Sbjct: 62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDI 101
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 17/38 (44%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSV 238
C CGG + A + WH +C C+ C+ L +
Sbjct: 64 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDI 101
>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 = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 18/40 (45%)
Query: 96 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSI 135
K C CGG + + A S WH +C KC C L I
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDI 45
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 17/38 (44%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSV 238
C CGG + A + WH +C C+ C+ L +
Sbjct: 8 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDI 45
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 221 WHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
WH++C C C+ PL D++ YC AC+G+ F
Sbjct: 37 WHRECLVCTGCQTPLAGQQF-TSRDEDPYCVACFGELF 73
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 99 PRCGGVVFAAEQ--VLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK 153
PRC Q V + WHR+C C C L D+D YC C+G+
Sbjct: 16 PRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQF-TSRDEDPYCVACFGE 71
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 35/133 (26%), Positives = 49/133 (36%), Gaps = 45/133 (33%)
Query: 97 GCPRCGGVVFA-AEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKW 155
GC C + A +++V K WH CF+C C L
Sbjct: 7 GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPL----------------------- 43
Query: 156 GPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL 215
A F+ D N+ N TT + K +GC + A+ A +Q +
Sbjct: 44 --------ANETFVAKD---------NKILCNKCTTREDSPKCKGCFK---AIVAGDQNV 83
Query: 216 A-KGTMWHKQCFS 227
KGT+WHK CFS
Sbjct: 84 EYKGTVWHKDCFS 96
Score = 31.2 bits (69), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 200 GCPRCGGAVFAAEQQLA-KGTMWHKQCFSCNVCKRPL--DSVLACDGPDKEIYCKACYGK 256
GC C + A +++ K WH CF C C PL ++ +A D +I C C +
Sbjct: 7 GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVA---KDNKILCNKCTTR 63
Query: 257 NFGPK 261
PK
Sbjct: 64 EDSPK 68
>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 = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 113 AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
A WH KC KC DC+ L C + +YCK + K++G
Sbjct: 24 ALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDFFKRFG 65
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 221 WHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK 261
WH +C C+ C PL C + +YCK + K FG K
Sbjct: 29 WHSKCLKCSDCHVPLAE--RCFSRGESVYCKDDFFKRFGTK 67
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 31.2 bits (69), Expect = 0.72, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVC 231
C RC G AE+ + + G ++H+QCF C C
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 45
Score = 28.9 bits (63), Expect = 3.3, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDC 128
C RC G AE+++ + G +H +CF C C
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 45
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz
And Lim Domains Protein
Length = 90
Score = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 81 RTTVIDTAKIKAAPGKGCPRCG--GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINAC 138
+ T++ A+ A GK P C V ++A G WH + F C C T+ I
Sbjct: 9 QDTLVQRAEHIPA-GKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFV 67
Query: 139 DGPDKDIYCKTCYGK 153
+ +YC+ CY K
Sbjct: 68 E-EKGALYCELCYEK 81
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 215 LAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
+A G WH + F+C CK + + + +YC+ CY K F
Sbjct: 41 VALGKSWHPEEFNCAHCKNTMAYIGFVE-EKGALYCELCYEKFF 83
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 97 GCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
GC +CG + + A + WH +CF+C C + L I + + C+ C+ ++
Sbjct: 7 GCHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHL-CRPCHNRE 62
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 200 GCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
GC +CG + + A WH +CF C++C+ L + + + C+ C+ +
Sbjct: 7 GCHQCGEFIIGRVIK-AMNNSWHPECFRCDLCQEVLADIGFVKNAGRHL-CRPCHNR 61
>pdb|1USY|H Chain H, Atp Phosphoribosyl Transferase (Hisg:hisz) Complex From
Thermotoga Maritima
Length = 208
Score = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 31/87 (35%), Gaps = 7/87 (8%)
Query: 143 KDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR---KGE 199
KDI C + A GF TD L E E S +PF+ P S M KG
Sbjct: 37 KDIVCFMVRPFDVPTYLVHGVADIGFCGTDVLLEKETSLIQPFFIPTNISRMVLAGPKGR 96
Query: 200 GCP----RCGGAVFAAEQQLAKGTMWH 222
G P R Q+ + WH
Sbjct: 97 GIPEGEKRIATKFPNVTQRYCESKGWH 123
>pdb|1USY|E Chain E, Atp Phosphoribosyl Transferase (Hisg:hisz) Complex From
Thermotoga Maritima
pdb|1USY|F Chain F, Atp Phosphoribosyl Transferase (Hisg:hisz) Complex From
Thermotoga Maritima
pdb|1USY|G Chain G, Atp Phosphoribosyl Transferase (Hisg:hisz) Complex From
Thermotoga Maritima
Length = 208
Score = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 31/87 (35%), Gaps = 7/87 (8%)
Query: 143 KDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR---KGE 199
KDI C + A GF TD L E E S +PF+ P S M KG
Sbjct: 37 KDIVCFMVRPFDVPTYLVHGVADIGFCGTDVLLEKETSLIQPFFIPTNISRMVLAGPKGR 96
Query: 200 GCP----RCGGAVFAAEQQLAKGTMWH 222
G P R Q+ + WH
Sbjct: 97 GIPEGEKRIATKFPNVTQRYCESKGWH 123
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim
Protein 3
Length = 80
Score = 30.8 bits (68), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 98 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL 132
C C + + +LA +WH CFKC+ C+ L
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL 52
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 23/67 (34%), Gaps = 2/67 (2%)
Query: 193 IMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKA 252
I R C C + + LA WH CF C C L D YC++
Sbjct: 10 IKIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGEYI--SKDGVPYCES 67
Query: 253 CYGKNFG 259
Y FG
Sbjct: 68 DYHAQFG 74
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 30.8 bits (68), Expect = 0.96, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVC 231
C RC G AE+ + + G ++H+QCF C C
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 45
Score = 28.5 bits (62), Expect = 4.3, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDC 128
C RC G AE+++ + G +H +CF C C
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 45
>pdb|1O64|A Chain A, Crystal Structure Of An Atp Phosphoribosyltransferase
pdb|1O64|B Chain B, Crystal Structure Of An Atp Phosphoribosyltransferase
Length = 219
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 31/87 (35%), Gaps = 7/87 (8%)
Query: 143 KDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR---KGE 199
KDI C + A GF TD L E E S +PF+ P S M KG
Sbjct: 38 KDIVCFMVRPFDVPTYLVHGVADIGFCGTDVLLEKETSLIQPFFIPTNISRMVLAGPKGR 97
Query: 200 GCP----RCGGAVFAAEQQLAKGTMWH 222
G P R Q+ + WH
Sbjct: 98 GIPEGEKRIATKFPNVTQRYCESKGWH 124
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 216 AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
A G +H CF+C VC R LD + +I+C + + F
Sbjct: 32 AMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 75
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 20/44 (45%)
Query: 113 AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
A G +H CF C C++ LD I I+C + +K+
Sbjct: 32 AMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 75
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 30.4 bits (67), Expect = 1.2, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVC 231
C RC G AE+ + + G ++H+QCF C C
Sbjct: 10 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 41
Score = 28.1 bits (61), Expect = 5.5, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 98 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDC 128
C RC G AE+++ + G +H +CF C C
Sbjct: 10 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQC 41
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 97 GCPRCGGVVFAAEQVLAKGSEWHRKCF 123
C RCG +V+ E+V WH+ CF
Sbjct: 5 NCARCGKIVYPTEKVNCLDKFWHKACF 31
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 200 GCPRCGGAVFAAEQQLAKGTMWHKQCF 226
C RCG V+ E+ WHK CF
Sbjct: 5 NCARCGKIVYPTEKVNCLDKFWHKACF 31
>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 = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 117 EWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
WH C KC DC L + C +YCK + K++G
Sbjct: 28 HWHSSCLKCADCQMQL--ADRCFSRAGSVYCKEDFFKRFG 65
>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 = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPL 235
C RC AE+ + + G ++H+ CF C C RP
Sbjct: 14 CQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPF 49
>pdb|1K82|A Chain A, Crystal Structure Of E.Coli Formamidopyrimidine-Dna
Glycosylase (Fpg) Covalently Trapped With Dna
pdb|1K82|B Chain B, Crystal Structure Of E.Coli Formamidopyrimidine-Dna
Glycosylase (Fpg) Covalently Trapped With Dna
pdb|1K82|C Chain C, Crystal Structure Of E.Coli Formamidopyrimidine-Dna
Glycosylase (Fpg) Covalently Trapped With Dna
pdb|1K82|D Chain D, Crystal Structure Of E.Coli Formamidopyrimidine-Dna
Glycosylase (Fpg) Covalently Trapped With Dna
Length = 268
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 10/58 (17%)
Query: 168 FLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQC 225
FLQ+DG +P Y + RKGE C CG + A + + T + +QC
Sbjct: 219 FLQSDG---------KPGYFAQELQVYGRKGEPCRVCGTPIVATKHA-QRATFYCRQC 266
>pdb|1O63|A Chain A, Crystal Structure Of An Atp Phosphoribosyltransferase
pdb|1O63|B Chain B, Crystal Structure Of An Atp Phosphoribosyltransferase
Length = 219
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 28/72 (38%), Gaps = 10/72 (13%)
Query: 158 HGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTS---IMARKGEGCP----RCGGAVFA 210
HG A GF TD L E E S +PF+ P S + KG G P R
Sbjct: 56 HG---VADIGFCGTDVLLEKETSLIQPFFIPTNISRXVLAGPKGRGIPEGEKRIATKFPN 112
Query: 211 AEQQLAKGTMWH 222
Q+ + WH
Sbjct: 113 VTQRYCESKGWH 124
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 107 AAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
A+ + + S+WH +CF C C+ +L +K+I+C+ C
Sbjct: 20 GAKFICFQDSQWHSECFNCGKCSVSLVGKGFLT-QNKEIFCQKC 62
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 5/37 (13%)
Query: 219 TMWHKQCFSCNVCKRPL--DSVLACDGPDKEIYCKAC 253
+ WH +CF+C C L L +KEI+C+ C
Sbjct: 29 SQWHSECFNCGKCSVSLVGKGFLT---QNKEIFCQKC 62
>pdb|2Z07|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Thermus Thermophilus Hb8
pdb|2Z07|B Chain B, Crystal Structure Of Uncharacterized Conserved Protein
From Thermus Thermophilus Hb8
Length = 420
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 160 YGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEG 200
YGFAA + L+ D L E R +Y+P T R GEG
Sbjct: 369 YGFAALAARLKADALALXEREGFREYYDPLTGQ--GRGGEG 407
>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 = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 221 WHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
WHK+CF C C++ L D YC C+
Sbjct: 27 WHKECFVCTACRKQLSGQRF-TARDDFAYCLNCF 59
>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 = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 221 WHKQCFSCNVCKRPL-DSVLACDGPDKEIYCKACYGKNF 258
+H+ CF C C+R L D C D E+ C CY F
Sbjct: 39 FHEGCFRCCRCQRSLADEPFTCQ--DSELLCNDCYCSAF 75
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
0.320 0.138 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,437,781
Number of Sequences: 62578
Number of extensions: 412329
Number of successful extensions: 859
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 745
Number of HSP's gapped (non-prelim): 118
length of query: 281
length of database: 14,973,337
effective HSP length: 98
effective length of query: 183
effective length of database: 8,840,693
effective search space: 1617846819
effective search space used: 1617846819
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)