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= 040725
(164 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 = 79.3 bits (194), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 34/65 (52%), Positives = 46/65 (70%)
Query: 17 EKTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNIN 76
+KTVYP+E+L + V+H SCF+CS+C L L Y+S+ G +YCKPHF QLFK GN +
Sbjct: 22 QKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYD 81
Query: 77 KNFQS 81
+ F S
Sbjct: 82 EGFGS 86
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 18/85 (21%)
Query: 72 SGNINKNFQSPARLVEKSTPELTRSPSKAASIKTVCPLEKVAVESQAYHKTCFKCSHGGC 131
SG+ FQ+PAR + KTV P+E++ Q +H +CF+CS+
Sbjct: 3 SGSSGMKFQAPAR------------ETCVECQKTVYPMERLLANQQVFHISCFRCSYCNN 50
Query: 132 SISPSNYVALEG------NYNHLIK 150
+S Y +L G ++N L K
Sbjct: 51 KLSLGTYASLHGRIYCKPHFNQLFK 75
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of
MlpCRP3
Length = 58
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 33/52 (63%)
Query: 18 KTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
K+VY E++ G +HK+CF+C+ C +L+ +N + +G LYCK + + F
Sbjct: 7 KSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 104 KTVCPLEKVAVESQAYHKTCFKCSHGGCSISPSNYVALEG 143
K+V EKV + +HKTCF+C+ G S+ +N +G
Sbjct: 7 KSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDG 46
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 35/67 (52%)
Query: 7 IGTQQKYKVYEKTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 66
G +K +VY E++ G +HK+CF+C+ C +L+ + + EG +YCK +
Sbjct: 33 FGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYA 92
Query: 67 QLFKESG 73
+ F G
Sbjct: 93 KNFGPKG 99
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 110 EKVAVESQAYHKTCFKCSHGGCSISPSNYVALEG 143
EKV + +HK CF+C+ G S+ + EG
Sbjct: 50 EKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEG 83
>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 = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 3 AKSFIGTQQKYKVYEKTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 62
A+ F G ++ + + +VY E++ G +HK+CF+C+ C +L+ + + EG +YCK
Sbjct: 30 AQKFGGAEKCSRCGD-SVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 88
Query: 63 PHFEQLFKESG 73
+ + F G
Sbjct: 89 GCYAKNFGPKG 99
Score = 26.6 bits (57), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 110 EKVAVESQAYHKTCFKCSHGGCSISPSNYVALEG 143
EKV + +HK CF+C+ G S+ + EG
Sbjct: 50 EKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEG 83
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of
MlpCRP3
Length = 60
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%)
Query: 17 EKTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 62
EKTVY E++ +G +HK+CF C C+ L + ++ E +YCK
Sbjct: 8 EKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 31/52 (59%)
Query: 18 KTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
+ VY E++ G +HKSCF+C+ C +L+ + + +G +YCK + + F
Sbjct: 16 QAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNF 67
Score = 26.2 bits (56), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 110 EKVAVESQAYHKTCFKCSHGGCSISPSNYVALEG 143
EKV +++HK+CF+C+ G S+ + +G
Sbjct: 22 EKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDG 55
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 62/159 (38%), Gaps = 24/159 (15%)
Query: 8 GTQQKYKVYEKTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 67
G +K V +K VY E++ +G +HKSCF C CK L + + +YCK + +
Sbjct: 5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGK 64
Query: 68 ---------------LFKESGNINKNFQSPARLVEKSTPELTRSPSKAASIKTVCP---- 108
L + G + + P +R K CP
Sbjct: 65 KYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGG-SDGCPRCGQ 123
Query: 109 ----LEKVAVESQAYHKTCFKCSHGGCSISPSNYVALEG 143
EKV +++HK+CF+C+ G S+ + +G
Sbjct: 124 AVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDG 162
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 31/52 (59%)
Query: 18 KTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
+ VY E++ G +HKSCF+C+ C +L+ + + +G +YCK + + F
Sbjct: 123 QAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNF 174
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 39.7 bits (91), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 17 EKTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC-KPHFEQLF 69
+KTVY E++S G +HK C KC C TL ++ +G +C KP + LF
Sbjct: 16 DKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 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 = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 20 VYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSM--EGVLYCKPHFEQ 67
+Y +E+L +G +H+SCF+C C+ TL Y +G YC H Q
Sbjct: 25 LYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQ 74
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 109 LEKVAVESQAYHKTCFKCSHGGCSISPSNYVALEGN 144
LE++ V +H++CF+C ++ P Y G+
Sbjct: 28 LERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGD 63
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 17 EKTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK-PHFEQLFKESG 73
+K VY E+++ G +H+ C KC C TL ++ EG YC P + +F G
Sbjct: 7 DKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKG 64
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And
Glycine- Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 31/66 (46%)
Query: 8 GTQQKYKVYEKTVYPVEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 67
G K +TVY E++ DG +H+ CF C C+ L + + + +YCK + +
Sbjct: 5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGK 64
Query: 68 LFKESG 73
+ G
Sbjct: 65 KYGPKG 70
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin
Repeat Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 34.7 bits (78), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 22 PVEQL-SDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
P E++ + +G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 23 PAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 34.7 bits (78), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 22 PVEQLSD-DGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
P E++ + +G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 23 PAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 34.3 bits (77), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 22 PVEQL-SDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
P E++ + +G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 19 PAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 67
>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 = 34.3 bits (77), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 22 PVEQL-SDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
P E++ + +G +YH+ CF C+ C + EG YC+ F+ LF
Sbjct: 23 PAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like
Pdz And Lim Domains Protein
Length = 90
Score = 34.3 bits (77), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 30 GVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
G +H F C+HCK T+ + +G LYC+ +E+ F
Sbjct: 44 GKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83
>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 = 0.097, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 18 KTVYP-VEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
+TV P +L G +H+ CF CS C+ L ++ +G YC P +E F
Sbjct: 13 ETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF 65
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 40/100 (40%), Gaps = 31/100 (31%)
Query: 33 YHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHFEQLFKESGNINKNFQSPARLVEKS 89
+H C KCS C+ G + S+Y+ G++ C+ + +LF SG + QS
Sbjct: 28 WHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIRLFGNSGACSACGQSI------- 79
Query: 90 TPELTRSPSKAASIKTVCPLEKVAVESQA--YHKTCFKCS 127
P ++ + +Q YH CF CS
Sbjct: 80 ------------------PASELVMRAQGNVYHLKCFTCS 101
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 30 GVVYHKSCFKCSHCKGTLKLSN-YSSMEGVLYCK 62
G VYH CF CS C+ L + + + G L+C+
Sbjct: 90 GNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE 123
>pdb|2DFY|X Chain X, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim
Domains 1 And 2 With The Lim Interacting Domain Of Ldb1
pdb|2DFY|C Chain C, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim
Domains 1 And 2 With The Lim Interacting Domain Of Ldb1
Length = 195
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 40/100 (40%), Gaps = 31/100 (31%)
Query: 33 YHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHFEQLFKESGNINKNFQSPARLVEKS 89
+H C KCS C+ G + S+Y+ G++ C+ + +LF SG + QS
Sbjct: 26 WHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIRLFGNSGACSACGQSI------- 77
Query: 90 TPELTRSPSKAASIKTVCPLEKVAVESQA--YHKTCFKCS 127
P ++ + +Q YH CF CS
Sbjct: 78 ------------------PASELVMRAQGNVYHLKCFTCS 99
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 30 GVVYHKSCFKCSHCKGTLKLSN-YSSMEGVLYCK 62
G VYH CF CS C+ L + + + G L+C+
Sbjct: 88 GNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE 121
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 34 HKSCFKCSHCKGTLKLSNYSSMEGVLYCKPH 64
H CF C+ C LK Y +EG LYC+ 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 = 30.4 bits (67), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 33 YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNINKNFQSPARLVEKS 89
+H SC KC+ C+ L +S G +YCK F + F + P ++V K+
Sbjct: 29 WHSSCLKCADCQMQLADRCFSRA-GSVYCKEDFFKRFGTKCTACQQGIPPTQVVRKA 84
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 30.0 bits (66), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 30 GVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
G V+HK CF CS+CK + ++ YC E F
Sbjct: 36 GTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF 75
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 29.6 bits (65), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 33 YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
+H SCFKC C + Y S +GV YC+ + F
Sbjct: 38 WHVSCFKCQTCS-VILTGEYISKDGVPYCESDYHAQF 73
>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 = 29.3 bits (64), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 33 YHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHFEQLF 69
+H C KCS C+ G + S+Y+ G++ C+ + +LF
Sbjct: 28 WHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIRLF 66
>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 = 0.98, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 32 VYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 62
V+H CF CS C+ L+ ++ ++E YC+
Sbjct: 28 VFHVGCFVCSTCRAQLRGQHFYAVERRAYCE 58
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 33 YHKSCFKCSHCK---GTLKLSNYSSMEGVLYCKPHFEQLF 69
+H C KCS C+ G + S+Y+ G++ C+ + +LF
Sbjct: 84 WHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIRLF 122
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 26 LSDDGVVY-----HKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
L+ GV Y H+ C C+ C+ L ++S + YC F +LF
Sbjct: 25 LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 20/42 (47%)
Query: 26 LSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 67
LS V+H CF C C + ++ ++G +C+ H+
Sbjct: 30 LSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHH 71
>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 = 2.3, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 33 YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
+HK CF C+ C+ L +++ + YC F L+
Sbjct: 27 WHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63
>pdb|1NYP|A Chain A, 4th Lim Domain Of Pinch Protein
pdb|1U5S|B Chain B, Nmr Structure Of The Complex Between Nck-2 Sh3 Domain
And Pinch-1 Lim4 Domain
Length = 66
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 22 PVEQ--LSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKE 71
P+E ++ G +H F C+ C+ + +G+ YC+ H+ QLF +
Sbjct: 14 PIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD 65
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 33 YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
+H C KCS C L +S E V YCK F + F
Sbjct: 83 WHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRF 118
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/52 (23%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 17 EKTVYP-VEQLSDDGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 67
+KT+ P ++ G +H++CF C C+ + ++ + +C P +E+
Sbjct: 12 KKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEK 63
>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 = 4.8, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 33 YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 69
+H C KCS C L +S E V YCK F + F
Sbjct: 29 WHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRF 64
>pdb|4DQL|A Chain A, Crystal Structure Of The Fad Binding Domain Of Cytochrome
P450 Bm3 In Complex With Nadp+
pdb|4DQL|B Chain B, Crystal Structure Of The Fad Binding Domain Of Cytochrome
P450 Bm3 In Complex With Nadp+
Length = 393
Score = 26.9 bits (58), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 86 VEKSTPELTRSPSKAASIKTVCPLEKVAVES----QAYHKTCF 124
VE P +TR+ +A + KTVCP KV +E+ QAY +
Sbjct: 98 VELQDP-VTRTQLRAMAAKTVCPPHKVELEALLEKQAYKEQVL 139
>pdb|3AX6|A Chain A, Crystal Structure Of N5-Carboxyaminoimidazole
Ribonucleotide Synthetase From Thermotoga Maritima
pdb|3AX6|B Chain B, Crystal Structure Of N5-Carboxyaminoimidazole
Ribonucleotide Synthetase From Thermotoga Maritima
pdb|3AX6|C Chain C, Crystal Structure Of N5-Carboxyaminoimidazole
Ribonucleotide Synthetase From Thermotoga Maritima
pdb|3AX6|D Chain D, Crystal Structure Of N5-Carboxyaminoimidazole
Ribonucleotide Synthetase From Thermotoga Maritima
Length = 380
Score = 26.6 bits (57), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 57 GVLYCKPHFEQLFKESGNINKNFQSPARLVEK 88
G + C P E F E NI +PAR+ EK
Sbjct: 188 GEIACYPVVEXYFDEDANICDTVIAPARIEEK 219
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
0.315 0.128 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,804,860
Number of Sequences: 62578
Number of extensions: 175007
Number of successful extensions: 455
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 391
Number of HSP's gapped (non-prelim): 75
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)