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= 029735
(189 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial
Protein Lost In Neoplasm
Length = 91
Score = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 35/79 (44%), Positives = 50/79 (63%)
Query: 5 AGTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFD 64
A + C C+KTVY +++L A+ +V+H +CFRC +C L L Y S G +YCKPHF+
Sbjct: 12 APARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFN 71
Query: 65 QLFKMTGSLDKSFEGTPKT 83
QLFK G+ D+ F P +
Sbjct: 72 QLFKSKGNYDEGFGSGPSS 90
Score = 68.2 bits (165), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 46/71 (64%)
Query: 103 AGTQDKCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYCRHHHN 162
A ++ CV C+KTVYP+E++ + +H +CFRC++ +S Y + R+YC+ H N
Sbjct: 12 APARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFN 71
Query: 163 QLFKQKGNFSQ 173
QLFK KGN+ +
Sbjct: 72 QLFKSKGNYDE 82
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 49/173 (28%), Positives = 75/173 (43%), Gaps = 10/173 (5%)
Query: 6 GTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQ 65
G +KC C+K VY +++ + +HK+CF C CK L + +YCK + +
Sbjct: 5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGK 64
Query: 66 LFKMTGSLDKSFEGTPKTVRVER--------SADQVTNSRVSSMF--AGTQDKCVACKKT 115
+ G GT T + E + + TN S M G D C C +
Sbjct: 65 KYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQA 124
Query: 116 VYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYCRHHHNQLFKQK 168
VY EKV G S+HK+CFRC G + + + +YC+ + + F K
Sbjct: 125 VYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 177
Score = 46.6 bits (109), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%)
Query: 1 MASFAGTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCK 60
MA G + C C + VY +++ K +HK+CFRC C +L+ + +G +YCK
Sbjct: 108 MAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 167
Query: 61 PHFDQLF 67
+ + F
Sbjct: 168 GCYAKNF 174
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 50.4 bits (119), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%)
Query: 6 GTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQ 65
G +KC AC +VY +++ K +HK CFRC C +L+ + EG +YCK + +
Sbjct: 34 GGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAK 93
Query: 66 LFKMTG 71
F G
Sbjct: 94 NFGPKG 99
Score = 49.7 bits (117), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 38/82 (46%), Gaps = 1/82 (1%)
Query: 88 RSADQVTNSRVSSMFAGTQDKCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSN 147
R S+ + F G +KC AC +VY EKV G +HK CFRC G + +
Sbjct: 19 RPTTNPNTSKFAQKFGGA-EKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTT 77
Query: 148 YVAHEHRLYCRHHHNQLFKQKG 169
E +YC+ + + F KG
Sbjct: 78 LTEKEGEIYCKGCYAKNFGPKG 99
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 34/66 (51%)
Query: 6 GTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQ 65
G +KC C +VY +++ K +HK CFRC C +L+ + EG +YCK + +
Sbjct: 34 GGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAK 93
Query: 66 LFKMTG 71
F G
Sbjct: 94 NFGPKG 99
Score = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 1/82 (1%)
Query: 88 RSADQVTNSRVSSMFAGTQDKCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSN 147
R S+ + F G +KC C +VY EKV G +HK CFRC G + +
Sbjct: 19 RPTTNPNTSKFAQKFGGA-EKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTT 77
Query: 148 YVAHEHRLYCRHHHNQLFKQKG 169
E +YC+ + + F KG
Sbjct: 78 LTEKEGEIYCKGCYAKNFGPKG 99
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%)
Query: 1 MASFAGTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCK 60
MA G + C C + VY +++ K +HK+CFRC C +L+ + +G +YCK
Sbjct: 1 MAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 60
Query: 61 PHFDQLF 67
+ + F
Sbjct: 61 GCYAKNF 67
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 32/65 (49%)
Query: 104 GTQDKCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYCRHHHNQ 163
G D C C + VY EKV G S+HK+CFRC G + + + +YC+ + +
Sbjct: 6 GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAK 65
Query: 164 LFKQK 168
F K
Sbjct: 66 NFGPK 70
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of
MlpCRP3
Length = 58
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 33/58 (56%)
Query: 10 KCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLF 67
KC C K+VY +++ K +HK CFRC C +L+ +N +G LYCK + + F
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
Score = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 30/58 (51%)
Query: 108 KCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYCRHHHNQLF 165
KC C K+VY EKV G +HK CFRC G + +N + LYC+ + + F
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
>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 = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 5 AGTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNY--CSFEGVLYCKPH 62
AG C C + +Y++++L + +H++CFRCH C+ TL Y +G YC H
Sbjct: 12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQH 71
Query: 63 FDQ 65
Q
Sbjct: 72 LPQ 74
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 103 AGTQDKCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAH--EHRLYCRHH 160
AG D C C + +Y +E++ V+G +H++CFRC + P Y H + YC H
Sbjct: 12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQH 71
Query: 161 HNQ 163
Q
Sbjct: 72 LPQ 74
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3
Length = 60
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 30/51 (58%)
Query: 108 KCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYCR 158
KC AC+KTVY E++ +G S+HK CF C + + AHE +YC+
Sbjct: 3 KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%)
Query: 10 KCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCK 60
KC ACEKTVY +++ + + +HK CF C C+ L + + E +YCK
Sbjct: 3 KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 10 KCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCK-PHFDQLFK 68
KC C+K VY +++T+ K +H+ C +C C TL + EG YC P + +F
Sbjct: 2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61
Query: 69 MTG 71
G
Sbjct: 62 PKG 64
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 108 KCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYCRHH-HNQLFK 166
KC C K VY E+V G +H+ C +C G ++ + HE + YC H ++ +F
Sbjct: 2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61
Query: 167 QKG 169
KG
Sbjct: 62 PKG 64
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 9 QKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYC-KPHFDQLF 67
KC C+KTVY +++++ K +HK C +C C TL + +G +C KP + LF
Sbjct: 10 SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%)
Query: 108 KCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYC 157
KC C KTVY EKV+ G +HK C +C ++P + H+ + +C
Sbjct: 11 KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFC 60
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine-
Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 35/66 (53%)
Query: 104 GTQDKCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYCRHHHNQ 163
G +KC AC +TVY E+V DG S+H+ CF C + + H+ +YC+ + +
Sbjct: 5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGK 64
Query: 164 LFKQKG 169
+ KG
Sbjct: 65 KYGPKG 70
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%)
Query: 6 GTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQ 65
G KC AC +TVY +++ D + +H+ CF C C+ L + + +YCK + +
Sbjct: 5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGK 64
Query: 66 LFKMTG 71
+ G
Sbjct: 65 KYGPKG 70
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 8 TQKCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHF 63
+ KC C + V L + L+A + V+H CF C C + ++ +G +C+ H+
Sbjct: 15 SPKCGGCNRPV-LENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHY 69
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 35.4 bits (80), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 5 AGTTQKCKACEK--TVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPH 62
AG+ Q+ C+K + + + A +K H CF C C LK Y EG LYC+ H
Sbjct: 19 AGSAQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETH 78
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 34.3 bits (77), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 11 CKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLF 67
C C++ + L A +K +H +CF+C C + Y S +GV YC+ + F
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCS-VILTGEYISKDGVPYCESDYHAQF 73
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like
Pdz And Lim Domains Protein
Length = 90
Score = 34.3 bits (77), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 24 LTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLF 67
L A K +H F C HCK T+ + +G LYC+ +++ F
Sbjct: 40 LVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83
>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human
Four And A Half Lim Domains 1
Length = 77
Score = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 108 KCVACKKTVYPIEK----VAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYC 157
KC CK + K VA +G S+H CF C ++ +V H+ ++YC
Sbjct: 17 KCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYC 70
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 8 TQKCKACEKTVYLVDQ-LTADNKVYHKACFRCHHCKGTLKLSNY 50
+ KCK C K + DQ + V+HK CF C +CK + ++
Sbjct: 15 SPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSF 58
Score = 30.4 bits (67), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 1/59 (1%)
Query: 108 KCVAC-KKTVYPIEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYCRHHHNQLF 165
KC C K V + V GT +HK CF C++ VI ++ YC H F
Sbjct: 17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF 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 = 0.16, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 4 FAGTTQK-CKACEKTVYLVDQLTADN-KVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKP 61
F G+ C+ C+ +++ N ++YH+ CF C C + FEG YC+
Sbjct: 6 FQGSANAVCQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEH 65
Query: 62 HFDQLF 67
F LF
Sbjct: 66 DFQMLF 71
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin
Repeat Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 11 CKACEKTVYLVDQLTADN-KVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLF 67
C+ C+ +++ N ++YH+ CF C C + FEG YC+ F LF
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 5 AGTTQKCKACEKTVYLVDQLTADN-KVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHF 63
A + C+ C+ +++ N ++YH+ CF C C + FEG YC+ F
Sbjct: 8 ALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 67
Query: 64 DQLF 67
LF
Sbjct: 68 QMLF 71
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 5 AGTTQKCKACEKTVYLVDQLTADN-KVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHF 63
A + C+ C+ +++ N ++YH+ CF C C + FEG YC+ F
Sbjct: 4 ALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 63
Query: 64 DQLF 67
LF
Sbjct: 64 QMLF 67
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 109 CVACKKTVYP-IEKVAVDGTSYHKACFRCTHGGCVISPSNYVAHEHRLYC 157
C CKKT+ P K+ G+S+H+ CF C I +++ +++ +C
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFC 57
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/56 (21%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 11 CKACEKTVYL-VDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQ 65
C+ C+KT+ ++ +H+ CF CH C+ + ++ + +C P +++
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEK 63
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 30.8 bits (68), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 15/26 (57%)
Query: 109 CVACKKTVYPIEKVAVDGTSYHKACF 134
C C K VYP EKV +HKACF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 11 CKACEKTVYLVDQLTADNKVYHKACF 36
C C K VY +++ +K +HKACF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
>pdb|2E6J|A Chain A, Solution Structure Of The C-Terminal Papd-Like Domain From
Human Hydin Protein
Length = 112
Score = 30.8 bits (68), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 38/98 (38%), Gaps = 20/98 (20%)
Query: 53 FEGVLYCKPHFDQLFKM---TGSLDKSFEGTPKTVRVERSADQVTNSRVSSMFAGT--QD 107
+E +LY K D LF M T +L F +PK +E S Q SS+ G ++
Sbjct: 30 YEAILYNKGSIDALFNMTPPTSALGACFVFSPKEGIIEPSGVQAIQISFSSIILGNFEEE 89
Query: 108 KCVACKKTVYPIEKVAVDGTSYHKACFRCTHGGCVISP 145
V + P+ + T GCVI P
Sbjct: 90 FLVNVNGSPEPV---------------KLTIRGCVIGP 112
>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 = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 46/107 (42%), Gaps = 13/107 (12%)
Query: 11 CKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLFKMT 70
C C++ + L A ++ +H C +C C L + E V YCK D FK
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCK---DDFFKRF 64
Query: 71 GSLDKSFE-GTPKTVRVERSADQVTNSRVSSMFAGTQDKCVACKKTV 116
G+ + + G P T V R+ D V + FA CV CK+ +
Sbjct: 65 GTKCAACQLGIPPTQVVRRAQDFVYHLHC---FA-----CVVCKRQL 103
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 11 CKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLFKMT 70
C C++ + L A ++ +H C +C C L + E V YCK D FK
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCK---DDFFKRF 118
Query: 71 GSLDKSFE-GTPKTVRVERSADQV 93
G+ + + G P T V R+ D V
Sbjct: 119 GTKCAACQLGIPPTQVVRRAQDFV 142
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 10 KCKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLF 67
+C C KT+ +T ++ +H+ C C C+ L + S + YC F +LF
Sbjct: 17 RCARCSKTL-TQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 6 GTTQKCKACEKTVYLVDQ-LTADNKVYHKACFRCHHCKGTLKLSN-YCSFEGVLYCK 60
G + C AC +++ + + A VYH CF C C+ L + + G L+C+
Sbjct: 67 GNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE 123
>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 = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 6 GTTQKCKACEKTVYLVDQ-LTADNKVYHKACFRCHHCKGTLKLSN-YCSFEGVLYCK 60
G + C AC +++ + + A VYH CF C C+ L + + G L+C+
Sbjct: 65 GNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE 121
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 22/45 (48%)
Query: 23 QLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLF 67
+L + +H+ CF C C+ L ++ +G YC P ++ F
Sbjct: 21 KLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF 65
>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 = 4.0, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 24 LTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCK 60
+ A ++V+H CF C C+ L+ ++ + E YC+
Sbjct: 22 VVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCE 58
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 4 FAGTTQKCKACEKTVYLVDQLTADNKVYHKACFRCHHC 41
+ T +KC C + + L L A K YH CF C C
Sbjct: 11 YVATLEKCATCSQPI-LDRILRAMGKAYHPGCFTCVVC 47
>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 = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 11 CKACEKTVYLVDQLTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKPHFDQLF 67
C AC + + + A K +H F C C+ + +G+ YC+ H++QLF
Sbjct: 8 CGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF 63
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 6 GTTQKCKACEKTVYLVDQ-LTADNKVYHKACFRCHHCK 42
G C +C+K + + + +KVYH CF+C C+
Sbjct: 8 GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 45
>pdb|1ROV|A Chain A, Lipoxygenase-3 Treated With Cumene Hydroperoxide
Length = 857
Score = 26.9 bits (58), Expect = 7.0, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 1/62 (1%)
Query: 61 PHFDQLFKMTGSLDKSFEGTPKTVRVERSADQVTNSRVSSMFAGTQDKCVACKKTVYPIE 120
P ++F+ G F PK ++V +SA M AG + C K P
Sbjct: 329 PVLKEIFRTDGEQALKFP-PPKVIQVSKSAWMTDEEFAREMLAGVNPNLIRCLKDFPPRS 387
Query: 121 KV 122
K+
Sbjct: 388 KL 389
>pdb|1IK3|A Chain A, Lipoxygenase-3 (Soybean) Complex With 13(S)-Hydroperoxy-
9(Z),11(E)-Octadecadienoic Acid
pdb|1HU9|A Chain A, Lipoxygenase-3 (Soybean) Complex With 4-Hydroperoxy-2-
Methoxy-Phenol
pdb|1JNQ|A Chain A, Lipoxygenase-3 (Soybean) Complex With Epigallocathechin
(Egc)
pdb|1N8Q|A Chain A, Lipoxygenase In Complex With Protocatechuic Acid
pdb|1NO3|A Chain A, Refined Structure Of Soybean Lipoxygenase-3 With
4-nitrocatechol At 2.15 Angstrom Resolution
pdb|1RRH|A Chain A, Soybean Lipoxygenase (Lox-3) At Ambient Temperatures At
2.0 A Resolution
pdb|1RRL|A Chain A, Soybean Lipoxygenase (Lox-3) At 93k At 2.0 A Resolution
pdb|1RRL|B Chain B, Soybean Lipoxygenase (Lox-3) At 93k At 2.0 A Resolution
pdb|1LNH|A Chain A, Lipoxygenase-3(Soybean) Non-Heme Fe(Ii) Metalloprotein
Length = 857
Score = 26.9 bits (58), Expect = 7.0, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 1/62 (1%)
Query: 61 PHFDQLFKMTGSLDKSFEGTPKTVRVERSADQVTNSRVSSMFAGTQDKCVACKKTVYPIE 120
P ++F+ G F PK ++V +SA M AG + C K P
Sbjct: 329 PVLKEIFRTDGEQALKFP-PPKVIQVSKSAWMTDEEFAREMLAGVNPNLIRCLKDFPPRS 387
Query: 121 KV 122
K+
Sbjct: 388 KL 389
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 26.9 bits (58), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 17/38 (44%)
Query: 24 LTADNKVYHKACFRCHHCKGTLKLSNYCSFEGVLYCKP 61
+ A N +H CFRC C+ L + G C+P
Sbjct: 20 IKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRP 57
>pdb|2L6Y|B Chain B, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid
pdb|2L6Z|C Chain C, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid With Fog
Length = 96
Score = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 6 GTTQKCKACEKTVYLVDQ-LTADNKVYHKACFRCHHCK 42
G C +C+K + + + +KVYH CF+C C+
Sbjct: 6 GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 43
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
0.321 0.131 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,826,163
Number of Sequences: 62578
Number of extensions: 221240
Number of successful extensions: 556
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 472
Number of HSP's gapped (non-prelim): 96
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)