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= psy12252
(356 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 = 118 bits (296), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 75/173 (43%), Positives = 93/173 (53%), Gaps = 2/173 (1%)
Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
GK C C V+ AE+V +GS +H+ CF C C K LDS D +IYCK+CYGKK
Sbjct: 7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65
Query: 230 HKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVV 289
+ G G G S + G+S K DGCPRCG V
Sbjct: 66 YGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAV 125
Query: 290 YAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK 342
YAAE++I + WH+ CF CA C +SL+ST L D D +IYC+GCY KNFGPK
Sbjct: 126 YAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPK 177
Score = 97.1 bits (240), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 72/228 (31%), Positives = 90/228 (39%), Gaps = 65/228 (28%)
Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHXXXXXX 82
KC C K+VY AEE G FHK CF C +
Sbjct: 9 KCGVCQKAVYFAEEVQCEGSSFHKSCFLCMV----------------------------- 39
Query: 83 XXXXXXXXXXCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHXXXXXXXXXXXXXXXXCLS 142
C K LDST H E+YC+ C+ LS
Sbjct: 40 ------------------CKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLS 81
Query: 143 MDAGEHL----TENNAPRTTVIDTAKI--KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRK 196
D GE L E + R T + +++ K GCPRCG V+AAE+V+ G WH+
Sbjct: 82 TDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKS 141
Query: 197 CFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPK 244
CF+C C K+L+S D D +I YCK CY KNFGPK
Sbjct: 142 CFRCAKCGKSLESTTLAD-KDGEI-----------YCKGCYAKNFGPK 177
>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 = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 43/75 (57%), Positives = 54/75 (72%), Gaps = 1/75 (1%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
C RCG VYAAE++I + WH+ CF CA C +SL+ST L + + +IYC+GCY KNFGP
Sbjct: 39 CSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGP 97
Query: 342 KGCGFGLGAGALTMA 356
KG G+G GAGAL A
Sbjct: 98 KGFGYGQGAGALVHA 112
Score = 75.5 bits (184), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 47/116 (40%), Positives = 62/116 (53%), Gaps = 20/116 (17%)
Query: 143 MDAGEHL--TENNAPR----TTVIDTAKI--KAAPGKGCPRCGGVVFAAEQVLAKGSEWH 194
MD GE L ++P TT +T+K K + C RCG V+AAE+V+ G WH
Sbjct: 1 MDRGERLGIKPESSPSPHRPTTNPNTSKFAQKFGGAEKCSRCGDSVYAAEKVIGAGKPWH 60
Query: 195 RKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGH 250
+ CF+C C K+L+S + + +I YCK CY KNFGPKGFGYG
Sbjct: 61 KNCFRCAKCGKSLESTTLTE-KEGEI-----------YCKGCYAKNFGPKGFGYGQ 104
Score = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 28/54 (51%), Positives = 37/54 (68%)
Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
KC CG SVYAAE+ + G +HK CF+C+ C K L+ST TE E E+YC+ C+
Sbjct: 38 KCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCY 91
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 42/75 (56%), Positives = 53/75 (70%), Gaps = 1/75 (1%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
C CG VYAAE++I + WH+ CF CA C +SL+ST L + + +IYC+GCY KNFGP
Sbjct: 39 CSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGP 97
Query: 342 KGCGFGLGAGALTMA 356
KG G+G GAGAL A
Sbjct: 98 KGFGYGQGAGALVHA 112
Score = 72.8 bits (177), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 46/116 (39%), Positives = 61/116 (52%), Gaps = 20/116 (17%)
Query: 143 MDAGEHL--TENNAPR----TTVIDTAKI--KAAPGKGCPRCGGVVFAAEQVLAKGSEWH 194
MD GE L ++P TT +T+K K + C CG V+AAE+V+ G WH
Sbjct: 1 MDRGERLGIKPESSPSPHRPTTNPNTSKFAQKFGGAEKCSACGDSVYAAEKVIGAGKPWH 60
Query: 195 RKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGH 250
+ CF+C C K+L+S + + +I YCK CY KNFGPKGFGYG
Sbjct: 61 KNCFRCAKCGKSLESTTLTE-KEGEI-----------YCKGCYAKNFGPKGFGYGQ 104
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 29/54 (53%), Positives = 38/54 (70%)
Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
KC ACG SVYAAE+ + G +HK CF+C+ C K L+ST TE E E+YC+ C+
Sbjct: 38 KCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCY 91
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 87.8 bits (216), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 39/63 (61%), Positives = 47/63 (74%), Gaps = 1/63 (1%)
Query: 280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
DGCPRCG VYAAE++I + WH+ CF CA C +SL+ST L D D +IYC+GCY KNF
Sbjct: 9 DGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNF 67
Query: 340 GPK 342
GPK
Sbjct: 68 GPK 70
Score = 71.2 bits (173), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 36/79 (45%), Positives = 44/79 (55%), Gaps = 12/79 (15%)
Query: 166 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 225
K GCPRCG V+AAE+V+ G WH+ CF+C C K+L+S D D +I
Sbjct: 4 KVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEI----- 57
Query: 226 YGKKHKYCKACYGKNFGPK 244
YCK CY KNFGPK
Sbjct: 58 ------YCKGCYAKNFGPK 70
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 24/53 (45%), Positives = 37/53 (69%)
Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
CP CG++VYAAE+ + G +HK CF+C+ C K L+ST + + E+YC+ C+
Sbjct: 11 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCY 63
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3
Length = 58
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 31/58 (53%), Positives = 42/58 (72%), Gaps = 1/58 (1%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
CPRCG VYAAE+++ + WH+ CF CA C +SL+STN+ D D ++YC+ CY KNF
Sbjct: 2 CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTD-KDGELYCKVCYAKNF 58
Score = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 31/54 (57%), Positives = 42/54 (77%)
Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
KCP CGKSVYAAE+ + GG +HK CF+C++C K L+STN T+ + ELYC+ C+
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCY 54
Score = 64.7 bits (156), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 29/56 (51%), Positives = 38/56 (67%), Gaps = 1/56 (1%)
Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK 228
CPRCG V+AAE+V+ G WH+ CF+C C K+L+S N D D ++YCK CY K
Sbjct: 2 CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTD-KDGELYCKVCYAK 56
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine-
Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 36/76 (47%), Positives = 48/76 (63%), Gaps = 1/76 (1%)
Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
G+ C CG VY AE++ R +HR CF C C ++LDST + D ++YC+ CYGK
Sbjct: 7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65
Query: 339 FGPKGCGFGLGAGALT 354
+GPKG G+G GAG L
Sbjct: 66 YGPKGYGYGQGAGTLN 81
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 35/87 (40%), Positives = 45/87 (51%), Gaps = 12/87 (13%)
Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
G C CG V+ AE+V G +HR CF C C K LDS D ++YCK+CYGKK
Sbjct: 7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65
Query: 230 HKYCKACYGKNFGPKGFGYGHSPTLVS 256
+GPKG+GYG ++
Sbjct: 66 -----------YGPKGYGYGQGAGTLN 81
Score = 58.2 bits (139), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 30/63 (47%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 14 MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
MP N KC ACG++VY AEE G FH+ CF C +C K LDST H+ E+YC+
Sbjct: 1 MPNWGGGN-KCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCK 59
Query: 74 QCH 76
C+
Sbjct: 60 SCY 62
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of
MlpCRP3
Length = 60
Score = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 29/55 (52%), Positives = 33/55 (60%)
Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
KC AC K+VY AEE G FHK CF C C K LDST HE E+YC+ C+
Sbjct: 2 AKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCY 56
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
G C C V+ AE++ G +H+ CF C C K LDS + +IYCK CYG++
Sbjct: 1 GAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTV-AAHESEIYCKVCYGRR 59
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
G C C VY AE++ R +H+ CF C C ++LDST + +++IYC+ CYG+
Sbjct: 1 GAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTV-AAHESEIYCKVCYGRR 59
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 38/77 (49%), Gaps = 11/77 (14%)
Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKY 232
CP+C V+ AE+V + G +WHR C KC C KTL S + K YC
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKP-YCN--------- 52
Query: 233 CKACYGKNFGPKGFGYG 249
CY FGPKGFG G
Sbjct: 53 -HPCYSAMFGPKGFGRG 68
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/53 (45%), Positives = 28/53 (52%)
Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ 74
PKCP C K VY AE + G +H+ C KC C K L S EHE + YC
Sbjct: 1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNH 53
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 32/66 (48%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
CP+C VY AE++ S + WHR C C C ++L S + CY FGP
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 342 KGCGFG 347
KG G G
Sbjct: 63 KGFGRG 68
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 30/52 (57%)
Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ 74
KCP C K+VY AE+ + G +HK C KC CSK L EH+ + +C +
Sbjct: 11 KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHK 62
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 29/55 (52%)
Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYG 227
CP+C V+ AE+V + G +WH+ C KC C+KTL + K K CY
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYA 66
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
CP+C VY AE++ S + WH+ C C C ++L + + CY FG
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG 70
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 20 ENPKCPACGKSVYAAEERVA-GGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
++PKC C K++ A ++ V G +HK CF CS C + + + + ++ YC CH
Sbjct: 14 DSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCH 71
Score = 35.4 bits (80), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 5/60 (8%)
Query: 174 PRCGG----VVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
P+C G +V + V KG+ WH+ CF C +C + + + + +D YC TC+ K
Sbjct: 16 PKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGT-GSFFPKGEDFYCVTCHETK 74
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
C C + A +Q + K +WH+ CF+C++C + + + + D YC C+ F
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKF 75
>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 = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 174 PRCGG---VVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
PRC G ++F+ E A+ WH K F C DC+ L DK + CK CY K H
Sbjct: 4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPV-CKPCYVKNH 62
Query: 231 K-YCKACYG 238
C+ C+
Sbjct: 63 AVVCQGCHN 71
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 7/60 (11%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDS---TNLNDGPDNDIYCRGCYGKN 338
C C ++++ E ++N+ WH + F C DC L +ND P C+ CY KN
Sbjct: 6 CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKP----VCKPCYVKN 61
>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 = 0.008, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 36/79 (45%), Gaps = 2/79 (2%)
Query: 164 KIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 223
K +A + C C V+ E++LA +H CF+C CN L S+ IYCK
Sbjct: 9 KFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKL-SLGTYASLHGRIYCK 67
Query: 224 TCYGKKHKYCKACYGKNFG 242
+ + K K Y + FG
Sbjct: 68 PHFNQLFK-SKGNYDEGFG 85
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 44/97 (45%), Gaps = 15/97 (15%)
Query: 257 TSGESTMQFY-DARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRS 315
+SG S M+F AR T C C VY E++++ +++H CF C+ C+
Sbjct: 2 SSGSSGMKFQAPARET----------CVECQKTVYPMERLLANQQVFHISCFRCSYCNNK 51
Query: 316 LDSTNLNDGPDNDIYCRGCYGKNFGPKGC---GFGLG 349
L S IYC+ + + F KG GFG G
Sbjct: 52 L-SLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFGSG 87
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 25/60 (41%)
Query: 14 MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
M F C C K+VY E +A FH CF+CS C+ L +YC+
Sbjct: 8 MKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCK 67
>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 = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 299 NRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK--GCGFGL 348
+R WH +C C+DCH L + G +YC+ + K FG K C G+
Sbjct: 26 DRHWHSKCLKCSDCHVPLAERCFSRG--ESVYCKDDFFKRFGTKCAACQLGI 75
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 188 AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
A WH KC KC DC+ L C + +YCK + K+
Sbjct: 24 ALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDFFKR 63
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
Query: 281 GCPRCGFVVYA-AEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
GC C + A ++++ KNR WH CF CA C L + DN I C C +
Sbjct: 7 GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFV-AKDNKILCNKCTTRED 65
Query: 340 GP--KGCGFGLGAG 351
P KGC + AG
Sbjct: 66 SPKCKGCFKAIVAG 79
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 299 NRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK--GCGFGL 348
+R WH +C C+DCH L + G +YC+ + K FG K C G+
Sbjct: 80 DRHWHSKCLKCSDCHVPLAERCFSRG--ESVYCKDDFFKRFGTKCAACQLGI 129
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 188 AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH-KYCKAC 236
A WH KC KC DC+ L C + +YCK + K+ C AC
Sbjct: 78 ALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDFFKRFGTKCAAC 125
>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 = 35.0 bits (79), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEH--EKELYCRQ 74
C CG+ +Y E G+ FH+ CF+C C L +H + YC Q
Sbjct: 18 CALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQ 70
Score = 34.7 bits (78), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 166 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL 207
+A G C CG ++ E++ G +HR CF+C C TL
Sbjct: 11 EAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATL 52
Score = 34.7 bits (78), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGP-DNDIYC 331
GD C CG +Y E++ +HR CF C C +L P D YC
Sbjct: 15 GDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYC 68
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 34.7 bits (78), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 3/59 (5%)
Query: 283 PRCGFVVYAAEQ--MISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
PRC Q + +++ WHR C C C L D D YC C+G+ F
Sbjct: 16 PRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSR-DEDPYCVACFGELF 73
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 174 PRCGGVVFAAEQ--VLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK 228
PRC Q V + WHR+C C C L D+D YC C+G+
Sbjct: 16 PRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQF-TSRDEDPYCVACFGE 71
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 172 GCPRCGGVVFAAEQVLA-KGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
GC C + + + KGS WH CF C C + + + + D +C CY K+H
Sbjct: 7 GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQH 65
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 2/60 (3%)
Query: 280 DGCPRCG-FVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
GC C ++ +M K WH CF C C + + + + DN +C CY K
Sbjct: 6 SGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQ 64
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 50/147 (34%), Gaps = 46/147 (31%)
Query: 171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
K C CGG + + A S WH +C KC C L I Y K+
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSS------YTKS----GM 55
Query: 231 KYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVY 290
C+ Y + FG G C CG +
Sbjct: 56 ILCRNDYIRLFGNSG-----------------------------------ACSACGQSIP 80
Query: 291 AAEQMI-SKNRIWHRRCFSCADCHRSL 316
A+E ++ ++ ++H +CF+C+ C L
Sbjct: 81 ASELVMRAQGNVYHLKCFTCSTCRNRL 107
Score = 31.2 bits (69), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 31/79 (39%), Gaps = 5/79 (6%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSL-DSTNLNDGPDNDIYCRGCYGKNFG 340
C CG + + + + WH RC C+ C L D + I CR Y + FG
Sbjct: 8 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 67
Query: 341 PKG----CGFGLGAGALTM 355
G CG + A L M
Sbjct: 68 NSGACSACGQSIPASELVM 86
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 24 CPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFL 58
C ACG+S+ A+E + A G +H CF CS C L
Sbjct: 72 CSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRL 107
>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 = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 50/147 (34%), Gaps = 46/147 (31%)
Query: 171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
K C CGG + + A S WH +C KC C L I Y K+
Sbjct: 4 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSS------YTKS----GM 53
Query: 231 KYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVY 290
C+ Y + FG G C CG +
Sbjct: 54 ILCRNDYIRLFGNSG-----------------------------------ACSACGQSIP 78
Query: 291 AAEQMI-SKNRIWHRRCFSCADCHRSL 316
A+E ++ ++ ++H +CF+C+ C L
Sbjct: 79 ASELVMRAQGNVYHLKCFTCSTCRNRL 105
Score = 31.2 bits (69), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 31/79 (39%), Gaps = 5/79 (6%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSL-DSTNLNDGPDNDIYCRGCYGKNFG 340
C CG + + + + WH RC C+ C L D + I CR Y + FG
Sbjct: 6 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 65
Query: 341 PKG----CGFGLGAGALTM 355
G CG + A L M
Sbjct: 66 NSGACSACGQSIPASELVM 84
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 24 CPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFL 58
C ACG+S+ A+E + A G +H CF CS C L
Sbjct: 70 CSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRL 105
>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 = 0.88, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 156 RTTVIDTAKIKAAPGKGCPRCG--GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINAC 213
+ T++ A+ A GK P C V ++A G WH + F C C T+ I
Sbjct: 9 QDTLVQRAEHIPA-GKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFV 67
Query: 214 DGPDKDIYCKTCYGK 228
+ +YC+ CY K
Sbjct: 68 E-EKGALYCELCYEK 81
>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 = 31.2 bits (69), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 299 NRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK 342
+R WH C CADC L + +YC+ + K FG K
Sbjct: 26 DRHWHSSCLKCADCQMQLADRCFSRA--GSVYCKEDFFKRFGTK 67
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 31.2 bits (69), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 18/40 (45%)
Query: 171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSI 210
K C CGG + + A S WH +C KC C L I
Sbjct: 62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDI 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 = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 18/40 (45%)
Query: 171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSI 210
K C CGG + + A S WH +C KC C L I
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDI 45
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 172 GCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
GC +CG + + A + WH +CF+C C + L I + + C+ C+ ++
Sbjct: 7 GCHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHL-CRPCHNRE 62
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 281 GCPRCGFVVYAAEQMISKNRIWHRRCF 307
C RCG +VY E++ ++ WH+ CF
Sbjct: 5 NCARCGKIVYPTEKVNCLDKFWHKACF 31
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 172 GCPRCGGVVFAAEQVLAKGSEWHRKCF 198
C RCG +V+ E+V WH+ CF
Sbjct: 5 NCARCGKIVYPTEKVNCLDKFWHKACF 31
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 2/67 (2%)
Query: 274 LKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRG 333
+K R C C + + +++ ++ WH CF C C L ++ D YC
Sbjct: 10 IKIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGEYISK--DGVPYCES 67
Query: 334 CYGKNFG 340
Y FG
Sbjct: 68 DYHAQFG 74
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL 207
C C + + +LA +WH CFKC+ C+ L
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL 52
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 179 VVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDI-YCKTCYGKK 229
V+ + ++ G WH CF C C + L S + PDK YC CY K
Sbjct: 15 VMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFV--PDKGAHYCVPCYENK 64
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 3/53 (5%)
Query: 288 VVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDI-YCRGCYGKNF 339
V+ + ++ + WH CF C+ C + L S + PD YC CY F
Sbjct: 15 VMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFV--PDKGAHYCVPCYENKF 65
>pdb|1INF|A Chain A, Influenza Virus BLEE40 NEURAMINIDASE COMPLEXED WITH
BANA113 Inhibitor
Length = 390
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 298 KNRIWHRRCFSCADCHRSLDSTNLN-DGPDNDIYCRGCYGKNF 339
+N I+H +S + CH + T + DGPDND + YG+ +
Sbjct: 92 ENSIFHMAAWSGSACHDGREWTYIGVDGPDNDALVKIKYGEAY 134
>pdb|1B9T|A Chain A, Novel Aromatic Inhibitors Of Influenza Virus Neuraminidase
Make Selective Interactions With Conserved Residues And
Water Molecules In The Active Site
pdb|1B9V|A Chain A, Novel Aromatic Inhibitors Of Influenza Virus Neuraminidase
Make Selective Interactions With Conserved Residues And
Water Molecules In Teh Active Site
pdb|1B9S|A Chain A, Novel Aromatic Inhibitors Of Influenza Virus Neuraminidase
Make Selective Interactions With Conserved Residues And
Water Molecules In The Active Site
pdb|1INV|A Chain A, A Sialic Acid Derived Phosphonate Analog Inhibits
Different Strains Of Influenza Virus Neuraminidase With
Different Efficiencies
pdb|1IVB|A Chain A, Structures Of Aromatic Inhibitors Of Influenza Virus
Neuraminidase
Length = 390
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 298 KNRIWHRRCFSCADCHRSLDSTNLN-DGPDNDIYCRGCYGKNF 339
+N I+H +S + CH + T + DGPDND + YG+ +
Sbjct: 92 ENSIFHMAAWSGSACHDGREWTYIGVDGPDNDALVKIKYGEAY 134
>pdb|1VCJ|A Chain A, Influenza B Virus Neuraminidase Complexed With
1-(4-Carboxy-2-(3-
Pentylamino)phenyl)-5-Aminomethyl-5-Hydroxymethyl-
Pyrrolidin-2-One
Length = 389
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 298 KNRIWHRRCFSCADCHRSLDSTNLN-DGPDNDIYCRGCYGKNF 339
+N I+H +S + CH + T + DGPDND + YG+ +
Sbjct: 91 ENSIFHMAAWSGSACHDGREWTYIGVDGPDNDALVKIKYGEAY 133
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 20/44 (45%)
Query: 297 SKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
+ + +H CF+C CHR LD + I+C + + F
Sbjct: 32 AMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 75
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
GC +C + + + +++ WH CF C C + L ++ YC CY KNF
Sbjct: 7 GCVKCNKAITSGG-ITYQDQPWHADCFVCVTCSKKLAGQRFT-AVEDQYYCVDCY-KNF 62
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 44 FHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
+H CF C CSK L T E + YC C+
Sbjct: 27 WHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCY 59
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human
Lim- Kinase 2 (limk2)
Length = 81
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 38 VAGGYKFHKMCFKCSMCSKFL---DSTNCTEHEKELYCRQCH 76
VAG +K+H CF C C + D+ +H LYC +CH
Sbjct: 31 VAGEFKYHPECFACMSCKVIIEDGDAYALVQHAT-LYCGKCH 71
>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 = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 274 LKGRNGDGCPRCGFVVYAAEQMISKN-RIWHRRCFSCADCHRSL 316
+G C RC AE++++ N ++H CF CA C R
Sbjct: 6 FQGSANAVCQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPF 49
>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human
Four And A Half Lim Domains 1
Length = 77
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 28 GKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQC 75
G SV A E G +H CF C CS L + H++++YC C
Sbjct: 31 GSSVVAYE-----GQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDC 73
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 274 LKGRNGDGCPRCGFVVYAAEQMISKN-RIWHRRCFSCADCHRSL 316
+G C RC AE++++ N ++H +CF CA C +
Sbjct: 6 FQGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQF 49
>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 = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 10/66 (15%)
Query: 1 MRVKQYKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS 60
+R Y + ++ F P CPAC K +R +FH C C +L+
Sbjct: 52 IRAMPYDRPFTVMAAF-----PLCPACDKEYRDPLDR-----RFHAQPVACPECGPYLEW 101
Query: 61 TNCTEH 66
+ EH
Sbjct: 102 VSHGEH 107
>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 = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 10/66 (15%)
Query: 1 MRVKQYKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS 60
+R Y + ++ F P CPAC K +R +FH C C +L+
Sbjct: 52 IRAMPYDRPFTVMAAF-----PLCPACDKEYRDPLDR-----RFHAQPVACPECGPYLEW 101
Query: 61 TNCTEH 66
+ EH
Sbjct: 102 VSHGEH 107
>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 = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 287 FVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF--GPK 342
+ + + ++ ++R +H CF C C RSL D+++ C CY F GP
Sbjct: 24 LIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFT-CQDSELLCNDCYCSAFSSGPS 80
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 16/67 (23%)
Query: 268 ARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDN 327
++P SGL G F+ + Q WH CF+C C SL +
Sbjct: 12 SKPISGLTGAK--------FICFQDSQ-------WHSECFNCGKCSVSLVGKGFLT-QNK 55
Query: 328 DIYCRGC 334
+I+C+ C
Sbjct: 56 EIFCQKC 62
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 182 AAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 225
A+ + + S+WH +CF C C+ +L +K+I+C+ C
Sbjct: 20 GAKFICFQDSQWHSECFNCGKCSVSLVGKGFLT-QNKEIFCQKC 62
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 43 KFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQC 75
++H CF C CS L KE++C++C
Sbjct: 30 QWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKC 62
>pdb|4AQS|A Chain A, Laminin Beta1 Ln-Le1-4 Structure
Length = 525
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 4/64 (6%)
Query: 225 CYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSG---ESTMQFYDARPTSGLKGRNGDG 281
CYG + C G N +G +GH +T G E M FY P +GRN +
Sbjct: 256 CYGHASE-CAPVDGVNEEVEGMVHGHCMCRHNTKGLNCELCMDFYHDLPWRPAEGRNSNA 314
Query: 282 CPRC 285
C +C
Sbjct: 315 CKKC 318
>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 = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 298 KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
+ + WH+ CF C C + L D+ YC C+
Sbjct: 23 REQPWHKECFVCTACRKQLSGQRFT-ARDDFAYCLNCF 59
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
0.323 0.138 0.468
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,887,648
Number of Sequences: 62578
Number of extensions: 444733
Number of successful extensions: 1101
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 909
Number of HSP's gapped (non-prelim): 190
length of query: 356
length of database: 14,973,337
effective HSP length: 100
effective length of query: 256
effective length of database: 8,715,537
effective search space: 2231177472
effective search space used: 2231177472
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)