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= 042895
(150 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 = 75.1 bits (183), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 33/71 (46%), Positives = 45/71 (63%)
Query: 6 TQQKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQL 65
++ C C+KTV P+E+L + V+H SCF+CS C L L Y+SL G YCKPHF QL
Sbjct: 14 ARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQL 73
Query: 66 LKESSNFNKNF 76
K N+++ F
Sbjct: 74 FKSKGNYDEGF 84
Score = 45.8 bits (107), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 29/46 (63%)
Query: 105 PWEKVAAESQASHKTCFKCSYAGYSISPSNYAALEGILYCKHNFSQ 150
P E++ A Q H +CF+CSY +S YA+L G +YCK +F+Q
Sbjct: 27 PMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQ 72
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 43/168 (25%), Positives = 71/168 (42%), Gaps = 22/168 (13%)
Query: 5 GTQQKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQ 64
G +KC VC+K V E++ +G +HKSCF C CK L + + YCK + +
Sbjct: 5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGK 64
Query: 65 LLKESS----------NFNKNFQLPAKSPSKVASMFSGPNKNVLL----AVKQCPW---- 106
+ +K L K + + PN + + CP
Sbjct: 65 KYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQA 124
Query: 107 ----EKVAAESQASHKTCFKCSYAGYSISPSNYAALEGILYCKHNFSQ 150
EKV ++ HK+CF+C+ G S+ + A +G +YCK +++
Sbjct: 125 VYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAK 172
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 4 IGTQQKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCK 59
+G C C + V E++ G +HKSCF+C++C +L+ + + +G YCK
Sbjct: 112 VGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 167
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%)
Query: 4 IGTQQKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCK 59
G +KC C +V E++ G +HK+CF+C++C +L+ + + EG YCK
Sbjct: 33 FGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 88
Score = 35.0 bits (79), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 2/69 (2%)
Query: 79 PAKSP--SKVASMFSGPNKNVLLAVKQCPWEKVAAESQASHKTCFKCSYAGYSISPSNYA 136
P +P SK A F G K EKV + HK CF+C+ G S+ +
Sbjct: 20 PTTNPNTSKFAQKFGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLT 79
Query: 137 ALEGILYCK 145
EG +YCK
Sbjct: 80 EKEGEIYCK 88
>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 = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%)
Query: 4 IGTQQKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCK 59
G +KC C +V E++ G +HK+CF+C++C +L+ + + EG YCK
Sbjct: 33 FGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 88
Score = 35.0 bits (79), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 2/69 (2%)
Query: 79 PAKSP--SKVASMFSGPNKNVLLAVKQCPWEKVAAESQASHKTCFKCSYAGYSISPSNYA 136
P +P SK A F G K EKV + HK CF+C+ G S+ +
Sbjct: 20 PTTNPNTSKFAQKFGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLT 79
Query: 137 ALEGILYCK 145
EG +YCK
Sbjct: 80 EKEGEIYCK 88
>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 = 43.1 bits (100), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 5 GTQQKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSL--EGVFYCKPHF 62
G C +C + + +E+L +G +H+SCF+C C+ TL Y +G FYC H
Sbjct: 13 GAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHL 72
Query: 63 EQ 64
Q
Sbjct: 73 PQ 74
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of
MlpCRP3
Length = 60
Score = 43.1 bits (100), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 29/51 (56%)
Query: 9 KCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCK 59
KC CEKTV E++ +G +HK+CF C C+ L + ++ E YCK
Sbjct: 3 KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 107 EKVAAESQASHKTCFKCSYAGYSISPSNYAALEGILYCK 145
E++ ++ HKTCF C ++ + AA E +YCK
Sbjct: 15 EEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 4 IGTQQKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCK 59
+G C C + V E++ G +HKSCF+C++C +L+ + + +G YCK
Sbjct: 5 VGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 60
Score = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 27/44 (61%)
Query: 107 EKVAAESQASHKTCFKCSYAGYSISPSNYAALEGILYCKHNFSQ 150
EKV ++ HK+CF+C+ G S+ + A +G +YCK +++
Sbjct: 22 EKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAK 65
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of
MlpCRP3
Length = 58
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 31/51 (60%)
Query: 9 KCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCK 59
KC C K+V E++ G +HK+CF+C+ C +L+ +N + +G YCK
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCK 51
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%)
Query: 107 EKVAAESQASHKTCFKCSYAGYSISPSNYAALEGILYCKHNFSQ 150
EKV + HKTCF+C+ G S+ +N +G LYCK +++
Sbjct: 13 EKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAK 56
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 9 KCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYC-KPHFEQLL 66
KC C+KTV E++S+ G +HK C KC RC TL ++ +G +C KP + L
Sbjct: 11 KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 107 EKVAAESQASHKTCFKCSYAGYSISPSNYAALEGILYC 144
EKV++ + HK C KC +++P +A +G +C
Sbjct: 23 EKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFC 60
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%)
Query: 9 KCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYC 58
KC C+K V E++++ G +H+ C KC +C TL ++ EG YC
Sbjct: 2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYC 51
Score = 31.2 bits (69), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 107 EKVAAESQASHKTCFKCSYAGYSISPSNYAALEGILYCKH 146
E+V + + H+ C KC G +++ +A EG YC H
Sbjct: 14 ERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNH 53
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And
Glycine- Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%)
Query: 1 MSFIGTQQKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCK 59
M G KC C +TV E++ DG +H+ CF C C+ L + + + YCK
Sbjct: 1 MPNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCK 59
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVCPVEQL-STDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQLL 66
C+ C+ P E++ +++G +YH+ CF C++C + EG YC+ F+ L
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 = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVCPVEQL-STDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQLL 66
C+ C+ P E++ +++G +YH+ CF C++C + EG YC+ F+ L
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
Score = 26.2 bits (56), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 105 PWEKVA-AESQASHKTCFKCSYAGYSISPSNYAALEGILYCKHNF 148
P EK+ + + H+ CF C+ + EG YC+H+F
Sbjct: 23 PAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 67
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVCPVEQL-STDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQLL 66
C+ C+ P E++ +++G +YH+ CF C++C + EG YC+ F+ L
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
Score = 25.8 bits (55), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 105 PWEKVA-AESQASHKTCFKCSYAGYSISPSNYAALEGILYCKHNF 148
P EK+ + + H+ CF C+ + EG YC+H+F
Sbjct: 23 PAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 67
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 10 CKVCEKTVCPVEQL-STDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQLL 66
C+ C+ P E++ +++G +YH+ CF C++C + EG YC+ F+ L
Sbjct: 10 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 67
Score = 26.2 bits (56), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 105 PWEKVA-AESQASHKTCFKCSYAGYSISPSNYAALEGILYCKHNF 148
P EK+ + + H+ CF C+ + EG YC+H+F
Sbjct: 19 PAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 63
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 35.0 bits (79), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 9 KCKVCEKTVCPVEQ-LSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYC 58
KCK C K + +Q + G V+HK CF CS CK + ++ FYC
Sbjct: 17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYC 67
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 33.5 bits (75), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 10 CKVCEKTVCP-VEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQ 64
C+ C+KT+ P ++ G +H++CF C RC+ + ++ + +C P +E+
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEK 63
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 15 KTVCP-VEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFE 63
+TV P +L G +H+ CF CS C+ L ++ +G YC P +E
Sbjct: 13 ETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYE 62
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 31.2 bits (69), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 9 KCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQ 64
KC C + V LS V+H CF C C + ++ L+G +C+ H+
Sbjct: 17 KCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHH 71
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 30.4 bits (67), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 1 MSFIGTQQKCKVCEKTVCPVEQL--STDGVVYHKSCFKCSRCKGTLKLSN-YSSLEGVFY 57
+ G C C +++ P +L G VYH CF CS C+ L + + + G +
Sbjct: 63 IRLFGNSGACSACGQSI-PASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLF 121
Query: 58 CK 59
C+
Sbjct: 122 CE 123
Score = 29.6 bits (65), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 31/145 (21%), Positives = 55/145 (37%), Gaps = 30/145 (20%)
Query: 8 QKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCK---GTLKLSNYSSLEGVFYCKPHFEQ 64
++C C + L +H C KCS C+ G + S+Y+ G+ C+ + +
Sbjct: 6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIR 64
Query: 65 LLKESSNFNKNFQ-LPAKSPSKVASMFSGPNKNVLLAVKQCPWEKVAAESQASHKTCFKC 123
L S + Q +PA L ++ A+ H CF C
Sbjct: 65 LFGNSGACSACGQSIPASE----------------LVMR--------AQGNVYHLKCFTC 100
Query: 124 SYAGYSISPSN-YAALEGILYCKHN 147
S + P + + + G L+C+H+
Sbjct: 101 STCRNRLVPGDRFHYINGSLFCEHD 125
>pdb|3C2R|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With The Inhibitor Phthalate
pdb|3C2R|B Chain B, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With The Inhibitor Phthalate
Length = 295
Score = 30.4 bits (67), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 9/75 (12%)
Query: 58 CKPHFEQLLKESSNFNKNFQLPAKSPSK--VASMFSGPNKNVLLAVKQC--PWEKVAAES 113
C+ E L KE S F P+K+ S V + +GP KN+LLA + + + +
Sbjct: 66 CELQVEWLFKEGS-----FLEPSKNDSGKIVVAKITGPAKNILLAERTALNILSRSSGIA 120
Query: 114 QASHKTCFKCSYAGY 128
ASHK GY
Sbjct: 121 TASHKIISLARSTGY 135
>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 = 30.4 bits (67), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 1 MSFIGTQQKCKVCEKTVCPVEQL--STDGVVYHKSCFKCSRCKGTLKLSN-YSSLEGVFY 57
+ G C C +++ P +L G VYH CF CS C+ L + + + G +
Sbjct: 61 IRLFGNSGACSACGQSI-PASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLF 119
Query: 58 CK 59
C+
Sbjct: 120 CE 121
Score = 29.3 bits (64), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 31/144 (21%), Positives = 54/144 (37%), Gaps = 28/144 (19%)
Query: 8 QKCKVCEKTVCPVEQLSTDGVVYHKSCFKCSRCK---GTLKLSNYSSLEGVFYCKPHFEQ 64
++C C + L +H C KCS C+ G + S+Y+ G+ C+
Sbjct: 4 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCR----- 57
Query: 65 LLKESSNFNKNFQLPAKSPSKVASMFSGPNKNVLLAVKQCPWEKVAAESQASHKTCFKCS 124
N +L S + A S P +++ A+ H CF CS
Sbjct: 58 --------NDYIRLFGNSGACSACGQSIPASELVM----------RAQGNVYHLKCFTCS 99
Query: 125 YAGYSISPSN-YAALEGILYCKHN 147
+ P + + + G L+C+H+
Sbjct: 100 TCRNRLVPGDRFHYINGSLFCEHD 123
>pdb|3C2E|A Chain A, Crystal Structure At 1.9a Of The Apo Quinolinate
Phosphoribosyl Transferase (Bna6) From Saccharomyces
Cerevisiae
pdb|3C2O|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Sachharomyces Cerevisiae
Complexed With Quinolinate
pdb|3C2F|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Saccharomyces Cerevisiae
Complexed With Prpp
pdb|3C2V|A Chain A, Crystal Structure Of The Quinolinate Phosphoribosyl
Transferase (Bna6) From Saccharomyces Cerevisiae
Complexed With Prpp And The Inhibitor Phthalate
Length = 294
Score = 30.4 bits (67), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 9/75 (12%)
Query: 58 CKPHFEQLLKESSNFNKNFQLPAKSPSK--VASMFSGPNKNVLLAVKQC--PWEKVAAES 113
C+ E L KE S F P+K+ S V + +GP KN+LLA + + + +
Sbjct: 65 CELQVEWLFKEGS-----FLEPSKNDSGKIVVAKITGPAKNILLAERTALNILSRSSGIA 119
Query: 114 QASHKTCFKCSYAGY 128
ASHK GY
Sbjct: 120 TASHKIISLARSTGY 134
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 29.6 bits (65), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 31 HKSCFKCSRCKGTLKLSNYSSLEGVFYCKPH 61
H CF C+ C LK Y +EG YC+ H
Sbjct: 48 HPECFVCADCNLNLKQKGYFFVEGELYCETH 78
>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 = 29.3 bits (64), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVCPVEQLS-TDGVVYHKSCFKCSRCKGTLKLSN--YSSLEGVFYCKPHFE 63
KC C++ + P + + VYH CF C C L + Y +G CK +E
Sbjct: 67 KCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124
Score = 25.8 bits (55), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 30 YHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHF 62
+H SC KC+ C+ L +S G YCK F
Sbjct: 29 WHSSCLKCADCQMQLADRCFSR-AGSVYCKEDF 60
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 29 VYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQLLK 67
V+H CF CS C+ L+ ++ ++E YC+ + L+
Sbjct: 28 VFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE 66
>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 = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 10 CKVCEKTVCPVEQ--LSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQLLK 67
C C + P+E ++ G +H F C++C+ + +G+ YC+ H+ QL
Sbjct: 8 CGACRR---PIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG 64
Query: 68 E 68
+
Sbjct: 65 D 65
>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 = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 23 LSTDGVVY-----HKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQL 65
++T GV Y HK CF C+ C+ L +++ + YC F L
Sbjct: 15 ITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDL 62
>pdb|1F60|A Chain A, Crystal Structure Of The Yeast Elongation Factor Complex
Eef1a:eef1ba
pdb|1G7C|A Chain A, Yeast Eef1a:eef1ba In Complex With Gdpnp
pdb|1IJE|A Chain A, Nucleotide Exchange Intermediates In The Eef1a-eef1ba
Complex
pdb|1IJF|A Chain A, Nucleotide Exchange Mechanisms In The Eef1a-Eef1ba Complex
pdb|2B7B|A Chain A, Yeast Guanine Nucleotide Exchange Factor Eef1balpha K205a
Mutant In Complex With Eef1a And Gdp
pdb|2B7C|A Chain A, Yeast Guanine Nucleotide Exchange Factor Eef1balpha K205a
Mutant In Complex With Eef1a
Length = 458
Score = 27.7 bits (60), Expect = 2.7, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 50 SSLEGVFYCKPHFEQLLKESSNFNKNFQL-PAKSPSKVASMFSGPNKNVLLAVKQCPWEK 108
+ ++ V + + F++++KE+SNF K P P S ++G N++ A PW K
Sbjct: 153 NKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNG--DNMIEATTNAPWYK 210
>pdb|3QKG|A Chain A, Crystal Structure Of Alpha-1-Microglobulin At 2.3 A
Resolution
Length = 193
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 1 MSFIGTQQKCKVCEKTVCPVEQLSTDG-VVYHKSCFKCS 38
+S T+ + VCE+T E+ TDG +YHKS + +
Sbjct: 60 ISMTSTRWRKGVCEETSGAYEKTDTDGKFLYHKSKWNIT 98
>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 = 2.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVCPVEQ-LSTDGVVYHKSCFKCSRCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 4 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 45
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 30 YHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHF 62
+H SCFKC C + Y S +GV YC+ +
Sbjct: 38 WHVSCFKCQTCS-VILTGEYISKDGVPYCESDY 69
>pdb|3LSQ|A Chain A, Trypanosoma Brucei Seryl-Trna Synthetase
pdb|3LSQ|B Chain B, Trypanosoma Brucei Seryl-Trna Synthetase
pdb|3LSS|A Chain A, Trypanosoma Brucei Seryl-Trna Synthetase In Complex With
Atp
pdb|3LSS|B Chain B, Trypanosoma Brucei Seryl-Trna Synthetase In Complex With
Atp
Length = 484
Score = 27.3 bits (59), Expect = 3.3, Method: Composition-based stats.
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 42 GTLKLSNYSSLEGVFYCKP-------HFEQLLKESSNFNKNFQLPAK 81
G ++ + +E C P H E ++ S FNK+ LP +
Sbjct: 312 GIFRVHQFDKIEQFVVCSPRQEESWRHLEDMITTSEEFNKSLGLPYR 358
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 11/63 (17%)
Query: 9 KCKVCEKTVCPVEQLSTDGVVY-----HKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFE 63
+C C KT L+ GV Y H+ C C+ C+ L ++S + YC F
Sbjct: 17 RCARCSKT------LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFG 70
Query: 64 QLL 66
+L
Sbjct: 71 ELF 73
>pdb|3SE6|A Chain A, Crystal Structure Of The Human Endoplasmic Reticulum
Aminopeptidase 2
pdb|3SE6|B Chain B, Crystal Structure Of The Human Endoplasmic Reticulum
Aminopeptidase 2
Length = 967
Score = 27.3 bits (59), Expect = 3.7, Method: Composition-based stats.
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 62 FEQLLKESSNFNKNFQLPAKSPSKVASMF 90
FE + K+S N ++ PA++P+++ MF
Sbjct: 422 FEVITKDSLNSSRPISKPAETPTQIQEMF 450
>pdb|4E36|A Chain A, Crystal Structure Of The Human Endoplasmic Reticulum
Aminopeptidase 2 Variant N392k
pdb|4E36|B Chain B, Crystal Structure Of The Human Endoplasmic Reticulum
Aminopeptidase 2 Variant N392k
Length = 967
Score = 27.3 bits (59), Expect = 3.8, Method: Composition-based stats.
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 62 FEQLLKESSNFNKNFQLPAKSPSKVASMF 90
FE + K+S N ++ PA++P+++ MF
Sbjct: 422 FEVITKDSLNSSRPISKPAETPTQIQEMF 450
>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 = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVCPVEQ-LSTDGVVYHKSCFKCSRCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 2 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 43
>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 = 26.9 bits (58), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVCPVEQLS-TDGVVYHKSCFKCSRCKGTLKLSN--YSSLEGVFYCKPHFE 63
KC C+ + P + + VYH CF C CK L + Y + CK +E
Sbjct: 67 KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 124
>pdb|1I6I|A Chain A, Crystal Structure Of The Kif1a Motor Domain Complexed With
Mg-Amppcp
Length = 366
Score = 26.9 bits (58), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 66 LKESSNFNKNFQLPAKSPSKVASMFSGP 93
LKE +N NK+ K S +A M SGP
Sbjct: 265 LKEGANINKSLTTLGKVISALAEMDSGP 292
>pdb|1IA0|K Chain K, Kif1a Head-Microtubule Complex Structure In Atp-Form
pdb|2HXF|C Chain C, Kif1a Head-Microtubule Complex Structure In Amppnp-Form
pdb|2HXH|C Chain C, Kif1a Head-Microtubule Complex Structure In Adp-Form
Length = 394
Score = 26.9 bits (58), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 66 LKESSNFNKNFQLPAKSPSKVASMFSGP 93
LKE +N NK+ K S +A M SGP
Sbjct: 281 LKEGANINKSLTTLGKVISALAEMDSGP 308
>pdb|1I5S|A Chain A, Crystal Structure Of The Kif1a Motor Domain Complexed With
Mg-Adp
Length = 367
Score = 26.9 bits (58), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 66 LKESSNFNKNFQLPAKSPSKVASMFSGP 93
LKE +N NK+ K S +A M SGP
Sbjct: 265 LKEGANINKSLTTLGKVISALAEMDSGP 292
>pdb|1VFV|A Chain A, Crystal Structure Of The Kif1a Motor Domain Complexed With
Mg-Amppnp
pdb|1VFW|A Chain A, Crystal Structure Of The Kif1a Motor Domain Complexed With
Mg-Amppnp
pdb|1VFX|A Chain A, Crystal Structure Of The Kif1a Motor Domain Complexed With
Adp-mg-alfx
pdb|1VFZ|A Chain A, Crystal Structure Of The Kif1a Motor Domain Complexed With
Adp-Mg-Vo4
pdb|2ZFI|A Chain A, Crystal Structure Of The Kif1a Motor Domain Before Mg
Release
pdb|2ZFJ|A Chain A, Crystal Structure Of The Kif1a Motor Domain During Mg
Release: Mg-Releasing Transition-1
pdb|2ZFK|A Chain A, Crystal Structure Of The Kif1a Motor Domain During Mg
Release: Mg-Releasing Transition-2
pdb|2ZFL|A Chain A, Crystal Structure Of The Kif1a Motor Domain During Mg
Release: Mg-Releasing Transition-3
pdb|2ZFM|A Chain A, Crystal Structure Of The Kif1a Motor Domain After Mg
Release
Length = 366
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 66 LKESSNFNKNFQLPAKSPSKVASMFSGP 93
LKE +N NK+ K S +A M SGP
Sbjct: 265 LKEGANINKSLTTLGKVISALAEMDSGP 292
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 3/58 (5%)
Query: 9 KCKVCEKTVCPVEQLS-TDGVVYHKSCFKCSRCKGTLKLSN--YSSLEGVFYCKPHFE 63
KC C+ + P + + VYH CF C CK L + Y + CK +E
Sbjct: 121 KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like
Pdz And Lim Domains Protein
Length = 90
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 20/44 (45%)
Query: 23 LSTDGVVYHKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQLL 66
L G +H F C+ CK T+ + +G YC+ +E+
Sbjct: 40 LVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83
>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 = 26.2 bits (56), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1 MSFIGTQQKCKVCEKTVCPVEQ-LSTDGVVYHKSCFKCSRCK 41
+ G C C+K + E + VYH CFKC+ C+
Sbjct: 60 LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQ 101
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/54 (22%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 23 LSTDGVVY-----HKSCFKCSRCKGTLKLSNYSSLEGVFYCKPHFEQLLKESSN 71
+++ G+ Y H CF C C L ++++E +YC ++ + S+
Sbjct: 15 ITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSS 68
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 0.129 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,337,865
Number of Sequences: 62578
Number of extensions: 148484
Number of successful extensions: 404
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 43
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 317
Number of HSP's gapped (non-prelim): 106
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)