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= 029695
(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 = 87.8 bits (216), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 38/77 (49%), Positives = 53/77 (68%)
Query: 7 QQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
++ C C+KTVYP+E+L A+ V+H SCF+CS+C L L Y+S+ G +YCKPHF QLF
Sbjct: 15 RETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLF 74
Query: 67 KESGNFNKNFQSPAKSA 83
K GN+++ F S S
Sbjct: 75 KSKGNYDEGFGSGPSSG 91
Score = 75.9 bits (185), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 47/73 (64%)
Query: 105 QEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
+E C C KTVYP+E++ Q +H +CF+CS+ +S YA+L G +YCK HF+QLF
Sbjct: 15 RETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLF 74
Query: 165 KEKGSYNHLIKSA 177
K KG+Y+ S
Sbjct: 75 KSKGNYDEGFGSG 87
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 73.2 bits (178), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 50/178 (28%), Positives = 79/178 (44%), Gaps = 20/178 (11%)
Query: 5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
G +KC VC+K VY E++ +G +HKSCF C CK L + + +YCK + +
Sbjct: 5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGK 64
Query: 65 ---------------LFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCA 109
L + G +S P +R K G + C
Sbjct: 65 KYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKV-----GGSDGCP 119
Query: 110 SCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEK 167
C + VY EKV +++HK+CF+C+ G S+ + A +G +YCK +++ F K
Sbjct: 120 RCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 177
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 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
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 46/90 (51%), Gaps = 1/90 (1%)
Query: 79 PAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHG 138
P S P + SK A F G EKC++C +VY EKV + +HK CF+C+
Sbjct: 11 PESSPSPHRPTTNPNTSKFAQKFGGA-EKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKC 69
Query: 139 GCSISPSNYAALEGILYCKHHFSQLFKEKG 168
G S+ + EG +YCK +++ F KG
Sbjct: 70 GKSLESTTLTEKEGEIYCKGCYAKNFGPKG 99
Score = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 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 = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 45/90 (50%), Gaps = 1/90 (1%)
Query: 79 PAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHG 138
P S P + SK A F G EKC+ C +VY EKV + +HK CF+C+
Sbjct: 11 PESSPSPHRPTTNPNTSKFAQKFGGA-EKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKC 69
Query: 139 GCSISPSNYAALEGILYCKHHFSQLFKEKG 168
G S+ + EG +YCK +++ F KG
Sbjct: 70 GKSLESTTLTEKEGEIYCKGCYAKNFGPKG 99
Score = 50.1 bits (118), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 36/58 (62%)
Query: 9 KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
KC C K+VY E++ G +HK+CF+C+ C +L+ +N + +G LYCK + + F
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 35/58 (60%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
KC C K+VY EKV + +HKTCF+C+ G S+ +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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 31/51 (60%)
Query: 9 KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
KC CEKTVY E++ +G +HK+CF C C+ L + ++ E +YCK
Sbjct: 3 KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
KC +C KTVY E++ +++HKTCF C ++ + AA 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 = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%)
Query: 103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQ 162
G + C C + VY EKV +++HK+CF+C+ G S+ + A +G +YCK +++
Sbjct: 6 GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAK 65
Query: 163 LFKEK 167
F K
Sbjct: 66 NFGPK 70
Score = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 4 IGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 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|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 9 KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC-KPHFEQLF 66
KC C+KTVY E++S+ G +HK C KC C TL ++ +G +C KP + LF
Sbjct: 11 KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69
Score = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYC-KHHFSQLF 164
KC C KTVY EKV+ + +HK C KC +++P +A +G +C K ++ LF
Sbjct: 11 KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69
>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 = 21/62 (33%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSM--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
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 93 SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYA--AL 150
S S +G + CA C + +Y LE++ V +H++CF+C ++ P Y
Sbjct: 3 SGSSGQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPG 62
Query: 151 EGILYCKHHFSQ 162
+G YC H Q
Sbjct: 63 DGHFYCLQHLPQ 74
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And
Glycine- Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 34/70 (48%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 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
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 35/66 (53%)
Query: 103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQ 162
G KC +C +TVY E+V + +++H+ CF C ++ + A + +YCK + +
Sbjct: 5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGK 64
Query: 163 LFKEKG 168
+ KG
Sbjct: 65 KYGPKG 70
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 43.1 bits (100), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHH-FSQLFK 165
KC C K VY E+V + +H+ C KC G +++ +A EG YC H +S +F
Sbjct: 2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61
Query: 166 EKG 168
KG
Sbjct: 62 PKG 64
Score = 43.1 bits (100), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 9 KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK-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 = 0.002, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVYPVEQL-SADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C+ C+ P E++ +++G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 14 CQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLF 71
Score = 34.3 bits (77), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 108 CASCSKTVYPLEKVAVEN-QAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
C C P E++ N + YH+ CF C+ + EG YC+H 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 = 0.003, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVYPVEQL-SADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C+ C+ P E++ +++G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 108 CASCSKTVYPLEKVAVEN-QAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
C C P EK+ N + YH+ CF C+ + EG YC+H F LF
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/158 (21%), Positives = 60/158 (37%), Gaps = 42/158 (26%)
Query: 6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHF 62
+ ++C C + L A +H C KCS C+ G + S+Y+ G++ C+ +
Sbjct: 2 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDY 60
Query: 63 EQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVA 122
+LF SG C++C +++ E V
Sbjct: 61 IRLFGNSG------------------------------------ACSACGQSIPASELVM 84
Query: 123 -VENQAYHKTCFKCSHGGCSISPSN-YAALEGILYCKH 158
+ YH CF CS + P + + + G L+C+H
Sbjct: 85 RAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEH 122
Score = 33.5 bits (75), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQL--SADGVVYHKSCFKCSHCKGTLKLSN-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 = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 32/71 (45%), Gaps = 8/71 (11%)
Query: 104 TQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGC-----SISPSNYAALEGILYCKH 158
+ ++CA C + + + +H C KCS C I S+Y G++ C++
Sbjct: 2 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSS--CQAQLGDIGTSSYTK-SGMILCRN 58
Query: 159 HFSQLFKEKGS 169
+ +LF G+
Sbjct: 59 DYIRLFGNSGA 69
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/158 (21%), Positives = 60/158 (37%), Gaps = 42/158 (26%)
Query: 6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHF 62
+ ++C C + L A +H C KCS C+ G + S+Y+ G++ C+ +
Sbjct: 4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDY 62
Query: 63 EQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVA 122
+LF SG C++C +++ E V
Sbjct: 63 IRLFGNSG------------------------------------ACSACGQSIPASELVM 86
Query: 123 -VENQAYHKTCFKCSHGGCSISPSN-YAALEGILYCKH 158
+ YH CF CS + P + + + G L+C+H
Sbjct: 87 RAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEH 124
Score = 33.5 bits (75), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQL--SADGVVYHKSCFKCSHCKGTLKLSN-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 = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 32/71 (45%), Gaps = 8/71 (11%)
Query: 104 TQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGC-----SISPSNYAALEGILYCKH 158
+ ++CA C + + + +H C KCS C I S+Y G++ C++
Sbjct: 4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSS--CQAQLGDIGTSSYTK-SGMILCRN 60
Query: 159 HFSQLFKEKGS 169
+ +LF G+
Sbjct: 61 DYIRLFGNSGA 71
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVYPVEQL-SADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C+ C+ P E++ +++G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 10 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 67
Score = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 108 CASCSKTVYPLEKVAVEN-QAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
C C P EK+ N + YH+ CF C+ + EG YC+H F LF
Sbjct: 10 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 67
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVYPVEQL-SADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C+ C+ P E++ +++G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
Score = 35.0 bits (79), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 108 CASCSKTVYPLEKVAVEN-QAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
C C P EK+ N + YH+ CF C+ + EG YC+H F LF
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like
Pdz And Lim Domains Protein
Length = 90
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 23 LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 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 = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 9 KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
KCK C K + +Q + G V+HK CF CS+CK + ++ YC E F
Sbjct: 17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF 75
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 33.5 bits (75), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 9 KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
KC C + V LSA V+H CF C C + ++ ++G +C+ H+
Sbjct: 17 KCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHH 71
Score = 30.0 bits (66), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 6/63 (9%)
Query: 99 SMFSGTQEKCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
+MFS KC C++ V LE ++ + +H CF C S S ++ L+G +C+
Sbjct: 12 AMFS---PKCGGCNRPV--LENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCE 66
Query: 158 HHF 160
H+
Sbjct: 67 LHY 69
>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 = 0.11, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 15 KTVYP-VEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 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 = 0.11, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVYPVEQLS-ADGVVYHKSCFKCSHCKGTLKLSN--YSSMEGVLYCKPHFE 63
KC C++ + P + + A VYH CF C C L + Y +G L CK +E
Sbjct: 67 KCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124
Score = 30.0 bits (66), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 47/134 (35%), Gaps = 42/134 (31%)
Query: 30 YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEKLTPE 89
+H SC KC+ C+ L +S G +YCK E FK G
Sbjct: 29 WHSSCLKCADCQMQLADRCFSRA-GSVYCK---EDFFKRFGT------------------ 66
Query: 90 LTRSPSKAASMFSGTQEKCASCSKTVYPLEKVA-VENQAYHKTCFKCSHGGCSISPSN-- 146
KC +C + + P + V ++ YH CF C ++ +
Sbjct: 67 -----------------KCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEF 109
Query: 147 YAALEGILYCKHHF 160
Y +G L CK +
Sbjct: 110 YLMEDGRLVCKEDY 123
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKE 166
+CA C++ + + V ++ +H +C KC+ ++ ++ G +YCK F + F
Sbjct: 8 QCAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRCFSR-AGSVYCKEDFFKRFGT 66
Query: 167 K 167
K
Sbjct: 67 K 67
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 10 CKVCEKTVYP-VEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
C+ C+KT+ P ++ G +H++CF C C+ + ++ + +C P +E+
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEK 63
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 108 CASCSKTVYP-LEKVAVENQAYHKTCFKC 135
C C KT+ P K+ + ++H+TCF C
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFIC 36
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 32.3 bits (72), Expect = 0.16, Method: Composition-based stats.
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 108 CASCSKTVYPLEKVAVENQAYHKTCF 133
CA C K VYP EKV ++ +HK CF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
Score = 26.9 bits (58), Expect = 7.0, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCF 35
C C K VYP E+++ +HK+CF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 5 GTQQKCKVCEKTVYPV--EQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPH 61
G+ Q+ +C+K + + A H CF C+ C LK Y +EG LYC+ H
Sbjct: 20 GSAQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETH 78
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
C C++ + + L A +H SCFKC C + Y S +GV YC+ + F
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCS-VILTGEYISKDGVPYCESDYHAQF 73
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCS-ISPSNYAALEGILYCKHHFSQLF 164
CA C + + + + ++ +H +CFKC CS I Y + +G+ YC+ + F
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQT--CSVILTGEYISKDGVPYCESDYHAQF 73
>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 = 30.8 bits (68), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 80 AKSAEKLTPELTRSPSKAASM-FSGTQEKCASCSKTVYPLE-KVAVENQAYHKTCFKCS 136
+ +L +L R + + G CASC K + E + V+++ YH CFKC+
Sbjct: 40 GEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCA 98
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 60 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 101
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 103 GTQEKCASCSKTVYPLE-KVAVENQAYHKTCFKCS 136
G CASC K + E + V+++ YH CFKC+
Sbjct: 8 GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCA 42
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 4 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 45
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 30.4 bits (67), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 11/63 (17%)
Query: 9 KCKVCEKTVYPVEQLSADGVVY-----HKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 63
+C C KT L+ GV Y H+ C C+ C+ L ++S + YC F
Sbjct: 17 RCARCSKT------LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFG 70
Query: 64 QLF 66
+LF
Sbjct: 71 ELF 73
Score = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
+CA CSKT+ V +Q +H+ C C+ ++ + + + YC F +LF
Sbjct: 17 RCARCSKTLT-QGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 30.4 bits (67), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVYPVEQLS-ADGVVYHKSCFKCSHCKGTLKLSN--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 = 2.1, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 42/127 (33%), Gaps = 40/127 (31%)
Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKES 69
C C++ + L A +H C KCS C L +S E V YCK F FK
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDF---FKRF 118
Query: 70 GNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVENQAY 128
G KCA+C + P + V ++ Y
Sbjct: 119 GT-----------------------------------KCAACQLGIPPTQVVRRAQDFVY 143
Query: 129 HKTCFKC 135
H CF C
Sbjct: 144 HLHCFAC 150
Score = 26.9 bits (58), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEK 167
CA C + + + ++ +H C KCS ++ ++ E + YCK F + F K
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGTK 121
>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 = 30.4 bits (67), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVYPVEQLS-ADGVVYHKSCFKCSHCKGTLKLSN--YSSMEGVLYCKPHFE 63
KC C+ + P + + A VYH CF C CK L + Y + L CK +E
Sbjct: 67 KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 124
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 42/127 (33%), Gaps = 40/127 (31%)
Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKES 69
C C++ + L A +H C KCS C L +S E V YCK F FK
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDF---FKRF 64
Query: 70 GNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVENQAY 128
G KCA+C + P + V ++ Y
Sbjct: 65 GT-----------------------------------KCAACQLGIPPTQVVRRAQDFVY 89
Query: 129 HKTCFKC 135
H CF C
Sbjct: 90 HLHCFAC 96
>pdb|3CTM|A Chain A, Crystal Structure Of A Carbonyl Reductase From Candida
Parapsilosis With Anti-Prelog Stereo-Specificity
pdb|3CTM|B Chain B, Crystal Structure Of A Carbonyl Reductase From Candida
Parapsilosis With Anti-Prelog Stereo-Specificity
pdb|3CTM|C Chain C, Crystal Structure Of A Carbonyl Reductase From Candida
Parapsilosis With Anti-Prelog Stereo-Specificity
pdb|3CTM|D Chain D, Crystal Structure Of A Carbonyl Reductase From Candida
Parapsilosis With Anti-Prelog Stereo-Specificity
pdb|3CTM|E Chain E, Crystal Structure Of A Carbonyl Reductase From Candida
Parapsilosis With Anti-Prelog Stereo-Specificity
pdb|3CTM|F Chain F, Crystal Structure Of A Carbonyl Reductase From Candida
Parapsilosis With Anti-Prelog Stereo-Specificity
pdb|3CTM|G Chain G, Crystal Structure Of A Carbonyl Reductase From Candida
Parapsilosis With Anti-Prelog Stereo-Specificity
pdb|3CTM|H Chain H, Crystal Structure Of A Carbonyl Reductase From Candida
Parapsilosis With Anti-Prelog Stereo-Specificity
Length = 279
Score = 30.4 bits (67), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 150 LEGILYCKHHFSQLFKEKGSYNHLIKSASMKRAAASVPE 188
L G+ YC H+ ++FK+ G LI ++S+ ++P+
Sbjct: 145 LNGVYYCSHNIGKIFKKNGK-GSLIITSSISGKIVNIPQ 182
>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 = 30.4 bits (67), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 12 VCEKTVYPVEQ--LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKE 68
+C P+E ++A G +H F C+ C+ + +G+ YC+ H+ QLF +
Sbjct: 7 ICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD 65
>pdb|1PL6|A Chain A, Human SdhNADHINHIBITOR COMPLEX
pdb|1PL6|B Chain B, Human SdhNADHINHIBITOR COMPLEX
pdb|1PL6|C Chain C, Human SdhNADHINHIBITOR COMPLEX
pdb|1PL6|D Chain D, Human SdhNADHINHIBITOR COMPLEX
Length = 356
Score = 30.4 bits (67), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 45/122 (36%), Gaps = 31/122 (25%)
Query: 39 HCKGTLKLSNYSSME-------------GVLYCKPHFEQLFKESGNFNKNFQSPAKSAEK 85
H G L+L NY E G+ H+ + + GNF
Sbjct: 14 HGPGDLRLENYPIPEPGPNEVLLRXHSVGICGSDVHYWE-YGRIGNF------------- 59
Query: 86 LTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPS 145
+ + P SGT EK S K + P ++VA+E A + C G ++SPS
Sbjct: 60 ----IVKKPXVLGHEASGTVEKVGSSVKHLKPGDRVAIEPGAPRENDEFCKXGRYNLSPS 115
Query: 146 NY 147
+
Sbjct: 116 IF 117
>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 = 30.4 bits (67), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 103 GTQEKCASCSKTVYPLE-KVAVENQAYHKTCFKCS 136
G CASC K + E + V+++ YH CFKC+
Sbjct: 6 GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCA 40
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 2 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 43
>pdb|1PL7|A Chain A, Human Sorbitol Dehydrogenase (Apo)
pdb|1PL7|B Chain B, Human Sorbitol Dehydrogenase (Apo)
pdb|1PL7|C Chain C, Human Sorbitol Dehydrogenase (Apo)
pdb|1PL7|D Chain D, Human Sorbitol Dehydrogenase (Apo)
pdb|1PL8|A Chain A, Human SdhNAD+ COMPLEX
pdb|1PL8|B Chain B, Human SdhNAD+ COMPLEX
pdb|1PL8|C Chain C, Human SdhNAD+ COMPLEX
pdb|1PL8|D Chain D, Human SdhNAD+ COMPLEX
Length = 356
Score = 30.0 bits (66), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 45/122 (36%), Gaps = 31/122 (25%)
Query: 39 HCKGTLKLSNYSSME-------------GVLYCKPHFEQLFKESGNFNKNFQSPAKSAEK 85
H G L+L NY E G+ H+ + + GNF
Sbjct: 14 HGPGDLRLENYPIPEPGPNEVLLRMHSVGICGSDVHYWE-YGRIGNF------------- 59
Query: 86 LTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPS 145
+ + P SGT EK S K + P ++VA+E A + C G ++SPS
Sbjct: 60 ----IVKKPMVLGHEASGTVEKVGSSVKHLKPGDRVAIEPGAPRENDEFCKMGRYNLSPS 115
Query: 146 NY 147
+
Sbjct: 116 IF 117
>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 = 30.0 bits (66), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCK---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
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 104 TQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGC-----SISPSNYAALEGILYCKH 158
+ ++CA C + + + +H C KCS C I S+Y G++ C++
Sbjct: 4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSS--CQAQLGDIGTSSYTK-SGMILCRN 60
Query: 159 HFSQLF 164
+ +LF
Sbjct: 61 DYIRLF 66
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 8 QKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCK---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
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 8/64 (12%)
Query: 106 EKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGC-----SISPSNYAALEGILYCKHHF 160
++CA C + + + +H C KCS C I S+Y G++ C++ +
Sbjct: 62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSS--CQAQLGDIGTSSYTK-SGMILCRNDY 118
Query: 161 SQLF 164
+LF
Sbjct: 119 IRLF 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 = 1.4, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 7/46 (15%)
Query: 21 EQLSADGV-------VYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
E + DG V+H CF CS C+ L+ ++ ++E YC+
Sbjct: 13 EDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCE 58
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 101 FSGTQEKCASCSKTVYPLEKVA-VENQAYHKTCFKC 135
+ T EKCA+CS+ + L+++ +AYH CF C
Sbjct: 11 YVATLEKCATCSQPI--LDRILRAMGKAYHPGCFTC 44
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 2/65 (3%)
Query: 3 FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHC-KGTLKLSNYSSMEGVLYCKPH 61
++ T +KC C + + L A G YH CF C C +G + ++C
Sbjct: 11 YVATLEKCATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIED 69
Query: 62 FEQLF 66
F + F
Sbjct: 70 FHRKF 74
>pdb|2F9Y|B Chain B, The Crystal Structure Of The Carboxyltransferase Subunit
Of Acc From Escherichia Coli
Length = 304
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 93 SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSH 137
+P++ AS+ G KC SC + +Y E + + C KC H
Sbjct: 12 TPTRKASIPEGVWTKCDSCGQVLY-----RAELERNLEVCPKCDH 51
>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 = 2.8, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
C C K + V Q +HK CF C+ +S + A + YC + F L+
Sbjct: 8 CVQCKKPI-TTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 23 LSADGVVY-----HKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
++ GV Y HK CF C+ C+ L +++ + YC F L+
Sbjct: 15 ITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63
>pdb|3BS8|A Chain A, Crystal Structure Of Glutamate 1-Semialdehyde
Aminotransferase Complexed With
Pyridoxamine-5'-Phosphate From Bacillus Subtilis
Length = 438
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 4/53 (7%)
Query: 44 LKL--SNYSSM--EGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEKLTPELTR 92
LKL S Y M EGV FE LF + + +++ ++ ++AEK+ E++R
Sbjct: 385 LKLFASYYKGMANEGVFLPPSQFEGLFLSTAHTDEDIENTIQAAEKVFAEISR 437
>pdb|2F9I|B Chain B, Crystal Structure Of The Carboxyltransferase Subunit Of
Acc From Staphylococcus Aureus
pdb|2F9I|D Chain D, Crystal Structure Of The Carboxyltransferase Subunit Of
Acc From Staphylococcus Aureus
Length = 285
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 27/64 (42%), Gaps = 8/64 (12%)
Query: 90 LTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAA 149
LT SK + +G KC C K +Y E EN CF C H I+ + Y
Sbjct: 15 LTVQDSKNNDVPAGIMTKCPKCKKIMYTKE--LAENL---NVCFNCDH---HIALTAYKR 66
Query: 150 LEGI 153
+E I
Sbjct: 67 IEAI 70
>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human
Four And A Half Lim Domains 1
Length = 77
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 106 EKCASCSKTVYPLEK----VAVENQAYHKTCFKCSHGGCSISPSN 146
+KCA C + K VA E Q++H CF C CS++ +N
Sbjct: 16 KKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKK--CSVNLAN 58
>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 = 5.5, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 10 CKVCEKTVYP-VEQLSADGVVYHKS--CFKCSHCKGTLKLSNYSSMEGVLYC 58
C+ C + P V++++ + +H S CF CS C L + +EG+++C
Sbjct: 5 CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 56
>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 = 5.9, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 10 CKVCEKTVYP-VEQLSADGVVYHKS--CFKCSHCKGTLKLSNYSSMEGVLYC 58
C+ C + P V++++ + +H S CF CS C L + +EG+++C
Sbjct: 66 CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 117
>pdb|1M6B|A Chain A, Structure Of The Her3 (Erbb3) Extracellular Domain
pdb|1M6B|B Chain B, Structure Of The Her3 (Erbb3) Extracellular Domain
Length = 621
Score = 26.9 bits (58), Expect = 6.5, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 105 QEKCASCSKTVYPLEKVAVENQAYHKTCFKCSH 137
+ +C SC P+E A N + TC +C+H
Sbjct: 527 EAECFSCHPECQPMEGTATCNGSGSDTCAQCAH 559
>pdb|2FAU|A Chain A, Crystal Structure Of Human Vps26
Length = 341
Score = 26.6 bits (57), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 49 YSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSP 94
+ E +L+ K E+L K+ NF++ F+SP A PE+ P
Sbjct: 289 FKQQEIILWRKAP-EKLRKQRTNFHQRFESPESQASAEQPEMGLVP 333
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
0.316 0.127 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,670,112
Number of Sequences: 62578
Number of extensions: 213692
Number of successful extensions: 594
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 41
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 477
Number of HSP's gapped (non-prelim): 120
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)