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= 034188
(102 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 = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 38/78 (48%), Positives = 53/78 (67%)
Query: 6 TQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 65
++ C C+KTVYP+E+L A+ V+H SCF+CS+C L L Y+S+ G +YCKPHF QL
Sbjct: 14 ARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQL 73
Query: 66 FKESGNFNKNFQSPAKSA 83
FK GN+++ F S S
Sbjct: 74 FKSKGNYDEGFGSGPSSG 91
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 63
G +KC C +VY E++ G +HK+CF+C+ C +L+ + + EG +YCK +
Sbjct: 33 FGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYA 92
Query: 64 QLFKESG 70
+ F G
Sbjct: 93 KNFGPKG 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 = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 63
G +KC C +VY E++ G +HK+CF+C+ C +L+ + + EG +YCK +
Sbjct: 33 FGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYA 92
Query: 64 QLFKESG 70
+ F G
Sbjct: 93 KNFGPKG 99
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of
MlpCRP3
Length = 58
Score = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 36/58 (62%)
Query: 9 KCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
KC C K+VY E++ G +HK+CF+C+ C +L+ +N + +G LYCK + + F
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of
MlpCRP3
Length = 60
Score = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 31/51 (60%)
Query: 9 KCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
KC CEKTVY E++ +G +HK+CF C C+ L + ++ E +YCK
Sbjct: 3 KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 63
+G C C + VY E++ G +HKSCF+C+ C +L+ + + +G +YCK +
Sbjct: 5 VGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYA 64
Query: 64 QLF 66
+ F
Sbjct: 65 KNF 67
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 63
+G C C + VY E++ G +HKSCF+C+ C +L+ + + +G +YCK +
Sbjct: 112 VGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYA 171
Query: 64 QLF 66
+ F
Sbjct: 172 KNF 174
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 31/55 (56%)
Query: 5 GTQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
G +KC VC+K VY E++ +G +HKSCF C CK L + + +YCK
Sbjct: 5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCK 59
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 9 KCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC-KPHFEQLF 66
KC C+KTVY E++S+ G +HK C KC C TL ++ +G +C KP + LF
Sbjct: 11 KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And
Glycine- Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 34/70 (48%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
M G KC C +TVY E++ DG +H+ CF C C+ L + + + +YCK
Sbjct: 1 MPNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKS 60
Query: 61 HFEQLFKESG 70
+ + + G
Sbjct: 61 CYGKKYGPKG 70
>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 = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 5 GTQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSM--EGVLYCKPHF 62
G C +C + +Y +E+L +G +H+SCF+C C+ TL Y +G YC H
Sbjct: 13 GAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHL 72
Query: 63 EQ 64
Q
Sbjct: 73 PQ 74
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 9 KCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK-PHFEQLFK 67
KC C+K VY E++++ G +H+ C KC C TL ++ EG YC P + +F
Sbjct: 2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61
Query: 68 ESG 70
G
Sbjct: 62 PKG 64
>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 = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVYPVEQL-SADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C+ C+ P E++ +++G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 14 CQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin
Repeat Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVYPVEQL-SADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C+ C+ P E++ +++G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVYPVEQL-SADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C+ C+ P E++ +++G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVYPVEQL-SADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C+ C+ P E++ +++G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 10 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 67
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like
Pdz And Lim Domains Protein
Length = 90
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 23 LSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
L A G +H F C+HCK T+ + +G LYC+ +E+ F
Sbjct: 40 LVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 9 KCKVCEKTVYPVEQ-LSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
KCK C K + +Q + G V+HK CF CS+CK + ++ YC E F
Sbjct: 17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF 75
>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 = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQL--SADGIVYHKSCFKCSHCKGTLKLSN-YSSMEGVLY 57
+ G C C +++ P +L A G VYH CF CS C+ L + + + G L+
Sbjct: 61 IRLFGNSGACSACGQSI-PASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLF 119
Query: 58 CK 59
C+
Sbjct: 120 CE 121
Score = 33.1 bits (74), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 6 TQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHF 62
+ ++C C + L A +H C KCS C+ G + S+Y+ G++ C+ +
Sbjct: 2 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDY 60
Query: 63 EQLFKESG 70
+LF SG
Sbjct: 61 IRLFGNSG 68
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQL--SADGIVYHKSCFKCSHCKGTLKLSN-YSSMEGVLY 57
+ G C C +++ P +L A G VYH CF CS C+ L + + + G L+
Sbjct: 63 IRLFGNSGACSACGQSI-PASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLF 121
Query: 58 CK 59
C+
Sbjct: 122 CE 123
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 6 TQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHF 62
+ ++C C + L A +H C KCS C+ G + S+Y+ G++ C+ +
Sbjct: 4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDY 62
Query: 63 EQLFKESG 70
+LF SG
Sbjct: 63 IRLFGNSG 70
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 15 KTVYP-VEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
+TV P +L G +H+ CF CS C+ L ++ +G YC P +E F
Sbjct: 13 ETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF 65
>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 = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVYPVEQLS-ADGIVYHKSCFKCSHCKGTLKLSN--YSSMEGVLYCKPHFE 63
KC C++ + P + + A VYH CF C C L + Y +G L CK +E
Sbjct: 67 KCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 4/42 (9%)
Query: 30 YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGN 71
+H SC KC+ C+ L +S G +YCK E FK G
Sbjct: 29 WHSSCLKCADCQMQLADRCFSRA-GSVYCK---EDFFKRFGT 66
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 32.7 bits (73), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 9 KCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
KC C + V LSA V+H CF C C + ++ ++G +C+ H+
Sbjct: 17 KCGGCNRPVL-ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHH 71
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 32.0 bits (71), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 10 CKVCEKTVYP-VEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
C+ C+KT+ P ++ G +H++CF C C+ + ++ + +C P +E+
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEK 63
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 5 GTQQKCKVCEKTVYPV--EQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPH 61
G+ Q+ +C+K + + A H CF C+ C LK Y +EG LYC+ H
Sbjct: 20 GSAQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETH 78
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVYPVEQLS-ADGIVYHKSCFKCSHCKGTLKLSN--YSSMEGVLYCKPHFE 63
KC C+ + P + + A VYH CF C CK L + Y + L CK +E
Sbjct: 121 KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 10 CKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C C++ + L A +H C KCS C L +S E V YCK F + F
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRF 118
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 10 CKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C C++ + + L A +H SCFKC C + Y S +GV YC+ + F
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCS-VILTGEYISKDGVPYCESDYHAQF 73
>pdb|1NYP|A Chain A, 4th Lim Domain Of Pinch Protein
pdb|1U5S|B Chain B, Nmr Structure Of The Complex Between Nck-2 Sh3 Domain
And Pinch-1 Lim4 Domain
Length = 66
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 12 VCEKTVYPVEQ--LSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKE 68
+C P+E ++A G +H F C+ C+ + +G+ YC+ H+ QLF +
Sbjct: 7 ICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD 65
>pdb|2RGT|A Chain A, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
pdb|2RGT|B Chain B, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
Length = 169
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVYPVEQLS-ADGIVYHKSCFKCSHCKGTLKLSN--YSSMEGVLYCKPHFE 63
KC C+ + P + + A VYH CF C CK L + Y + L CK +E
Sbjct: 67 KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 124
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 10 CKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C C++ + L A +H C KCS C L +S E V YCK F + F
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRF 64
>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 = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 6 TQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHF 62
+ ++C C + L A +H C KCS C+ G + S+Y+ G++ C+ +
Sbjct: 4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDY 62
Query: 63 EQLF 66
+LF
Sbjct: 63 IRLF 66
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 11/63 (17%)
Query: 9 KCKVCEKTVYPVEQLSADGIVY-----HKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 63
+C C KT L+ G+ Y H+ C C+ C+ L ++S + YC F
Sbjct: 17 RCARCSKT------LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFG 70
Query: 64 QLF 66
+LF
Sbjct: 71 ELF 73
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 8 QKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHFEQ 64
++C C + L A +H C KCS C+ G + S+Y+ G++ C+ + +
Sbjct: 62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIR 120
Query: 65 LF 66
LF
Sbjct: 121 LF 122
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 29 VYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
V+H CF CS C+ L+ ++ ++E YC+
Sbjct: 28 VFHVGCFVCSTCRAQLRGQHFYAVERRAYCE 58
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQ-LSADGIVYHKSCFKCSHCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 4 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 45
>pdb|2FAU|A Chain A, Crystal Structure Of Human Vps26
Length = 341
Score = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 63 EQLFKESGNFNKNFQSPAKSAEKLTPEL 90
E+L K+ NF++ F+SP A PE+
Sbjct: 302 EKLRKQRTNFHQRFESPESQASAEQPEM 329
>pdb|2L6Y|B Chain B, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid
pdb|2L6Z|C Chain C, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid With Fog
Length = 96
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQ-LSADGIVYHKSCFKCSHCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 2 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 43
>pdb|2XJY|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21
Crystal Form
pdb|2XJZ|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|B Chain B, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|C Chain C, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|D Chain D, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|E Chain E, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
Length = 131
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQ-LSADGIVYHKSCFKCSHCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 60 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 101
>pdb|1GEG|A Chain A, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|B Chain B, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|C Chain C, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|D Chain D, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|E Chain E, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|F Chain F, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|G Chain G, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|H Chain H, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
Length = 256
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 62 FEQLFKESGNF----NKNFQSPAKSAEKLTPELVNLSYNI 97
EQ K G F N +P+ E +TPE+V+ YNI
Sbjct: 70 VEQARKTLGGFDVIVNNAGVAPSTPIESITPEIVDKVYNI 109
>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 = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 10 CKVCEKTVYP-VEQLSADGIVYHKS--CFKCSHCKGTLKLSNYSSMEGVLYC 58
C+ C + P V++++ + +H S CF CS C L + +EG+++C
Sbjct: 66 CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 117
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 3 FIGTQQKCKVCEKTVYPVEQLSADGIVYHKSCFKCSHCKGTLK 45
++ T +KC C + + L A G YH CF C C L
Sbjct: 11 YVATLEKCATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLD 52
>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 = 2.1, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 30 YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
+HK CF C+ C+ L +++ + YC F L+
Sbjct: 27 WHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63
>pdb|2IYB|E Chain E, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|F Chain F, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|G Chain G, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|H Chain H, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
Length = 65
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 10 CKVCEKTVYP-VEQLSADGIVYHKS--CFKCSHCKGTLKLSNYSSMEGVLYC 58
C+ C + P V++++ + +H S CF CS C L + +EG+++C
Sbjct: 5 CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 56
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 26.6 bits (57), Expect = 4.2, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 10 CKVCEKTVYPVEQLSADGIVYHKSCF 35
C C K VYP E+++ +HK+CF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl
Terminal Lim Domain Protein 1
Length = 79
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 28/71 (39%), Gaps = 18/71 (25%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGIV----------YHKSCFKCSHCKGTLKLSNYSSME 53
IG QK +C+K GIV H C+ C+ C LK + +E
Sbjct: 9 IGNAQKLPMCDKC--------GTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVE 60
Query: 54 GVLYCKPHFEQ 64
+YC+ H +
Sbjct: 61 DQIYCEKHARE 71
>pdb|3B8A|X Chain X, Crystal Structure Of Yeast Hexokinase Pi In Complex With
Glucose
Length = 485
Score = 25.4 bits (54), Expect = 7.6, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 12 VCEKTVYPVEQLSADGIVYHK-SCFKCSHCKG 42
+C+K Y ++ADG VY+K FK + KG
Sbjct: 403 ICQKRGYKTGHIAADGSVYNKYPGFKEAAAKG 434
>pdb|1HNO|A Chain A, Crystal Structure Of Peroxisomal Delta3-delta2-enoyl-coa
Isomerase From Saccharomyces Cerevisiae
pdb|1HNU|A Chain A, Crystal Structure Of Peroxisomal Delta3-Delta2-Enoyl-Coa
Isomerase From Saccharomyces Cerevisiae
pdb|1K39|A Chain A, The Structure Of Yeast Delta3-delta2-enoyl-coa Isomerase
Complexed With Octanoyl-coa
pdb|1K39|B Chain B, The Structure Of Yeast Delta3-delta2-enoyl-coa Isomerase
Complexed With Octanoyl-coa
pdb|1K39|C Chain C, The Structure Of Yeast Delta3-delta2-enoyl-coa Isomerase
Complexed With Octanoyl-coa
pdb|1PJH|A Chain A, Structural Studies On Delta3-Delta2-Enoyl-Coa Isomerase:
The Variable Mode Of Assembly Of The Trimeric Disks Of
The Crotonase Superfamily
pdb|1PJH|B Chain B, Structural Studies On Delta3-Delta2-Enoyl-Coa Isomerase:
The Variable Mode Of Assembly Of The Trimeric Disks Of
The Crotonase Superfamily
pdb|1PJH|C Chain C, Structural Studies On Delta3-Delta2-Enoyl-Coa Isomerase:
The Variable Mode Of Assembly Of The Trimeric Disks Of
The Crotonase Superfamily
Length = 280
Score = 25.4 bits (54), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 26/48 (54%)
Query: 44 LKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEKLTPELV 91
LK ++ E +++ KP + E+G +KNF P+ +AE +++
Sbjct: 167 LKFGTNTTYECLMFNKPFKYDIMCENGFISKNFNMPSSNAEAFNAKVL 214
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
0.318 0.131 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,017,285
Number of Sequences: 62578
Number of extensions: 105653
Number of successful extensions: 271
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 216
Number of HSP's gapped (non-prelim): 61
length of query: 102
length of database: 14,973,337
effective HSP length: 67
effective length of query: 35
effective length of database: 10,780,611
effective search space: 377321385
effective search space used: 377321385
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)