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= 029070
(199 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 = 84.0 bits (206), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 34/77 (44%), Positives = 51/77 (66%)
Query: 6 AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFD 65
A ++ C+ C KTVY +++L A+ +++H +CFRC +C L LG Y S G +YC+PHF+
Sbjct: 12 APARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFN 71
Query: 66 QLFKRTGSLDKSFEGTP 82
QLFK G+ D+ F P
Sbjct: 72 QLFKSKGNYDEGFGSGP 88
Score = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 32/69 (46%), Positives = 42/69 (60%)
Query: 108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
RE CV C+ TVYP E++ N +H SCF+CS+ +S Y + GR+YCK H NQL
Sbjct: 14 ARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQL 73
Query: 168 IKEKGNLSQ 176
K KGN +
Sbjct: 74 FKSKGNYDE 82
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 47/164 (28%), Positives = 74/164 (45%), Gaps = 10/164 (6%)
Query: 7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
G +KC C K VY +++ + +HK+CF C CK L +YC+ + +
Sbjct: 5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGK 64
Query: 67 LFKRTGSLDKSFEGTPKIAKPE----KPIDGEK-----PNVAKVSTMFGGTREKCVGCKN 117
+ G GT K E K +G+ PN ++++ GG+ + C C
Sbjct: 65 KYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGS-DGCPRCGQ 123
Query: 118 TVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
VY EKV G +HKSCF+C+ G + + +G +YCK
Sbjct: 124 AVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 167
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 3/86 (3%)
Query: 87 PEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVI 146
P +P PN +K + FGG EKC C ++VY EKV G P+HK+CF+C+ G +
Sbjct: 17 PHRPTT--NPNTSKFAQKFGGA-EKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL 73
Query: 147 SPSNYIAHEGRLYCKHHHNQLIKEKG 172
+ EG +YCK + + KG
Sbjct: 74 ESTTLTEKEGEIYCKGCYAKNFGPKG 99
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 34/66 (51%)
Query: 7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
G +KC AC +VY +K+ + +HK CFRC C +L+ EG +YC+ + +
Sbjct: 34 GGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAK 93
Query: 67 LFKRTG 72
F G
Sbjct: 94 NFGPKG 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 = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 3/86 (3%)
Query: 87 PEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVI 146
P +P PN +K + FGG EKC C ++VY EKV G P+HK+CF+C+ G +
Sbjct: 17 PHRPTT--NPNTSKFAQKFGGA-EKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL 73
Query: 147 SPSNYIAHEGRLYCKHHHNQLIKEKG 172
+ EG +YCK + + KG
Sbjct: 74 ESTTLTEKEGEIYCKGCYAKNFGPKG 99
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%)
Query: 7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
G +KC C +VY +K+ + +HK CFRC C +L+ EG +YC+ + +
Sbjct: 34 GGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAK 93
Query: 67 LFKRTG 72
F G
Sbjct: 94 NFGPKG 99
>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 = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 6 AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF--EGVLYCRPH 63
AG C C + +Y++++L + +H++CFRCH C+ TL G Y +G YC H
Sbjct: 12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQH 71
Query: 64 FDQ 66
Q
Sbjct: 72 LPQ 74
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAH--EGRLYCKHH 163
G + C C +Y E++ VNG +H+SCF+C + P Y H +G YC H
Sbjct: 13 GAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQH 71
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 10 QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC-RPHFDQLF 68
KC CDKTVY +K+++ + +HK C +C C TL G + +G +C +P + LF
Sbjct: 10 SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 27/51 (52%)
Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
KC C TVY EKVS G +HK C KC ++P + H+G+ +C
Sbjct: 10 SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFC 60
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC-RPHFDQLFK 69
KC CDK VY +++T+ + +H+ C +C C TL G + EG YC P + +F
Sbjct: 2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61
Query: 70 RTG 72
G
Sbjct: 62 PKG 64
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%)
Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKH 162
KC C VY E+V+ G +H+ C KC G ++ + HEG+ YC H
Sbjct: 2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNH 53
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3
Length = 58
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 30/51 (58%)
Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
KC C +VY EKV G P+HK+CF+C+ G + +N +G LYCK
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCK 51
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 32/58 (55%)
Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
KC C K+VY +K+ + +HK CFRC C +L+ N +G LYC+ + + F
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3
Length = 60
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 28/51 (54%)
Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
KC C+ TVY E++ NG +HK+CF C + + AHE +YCK
Sbjct: 3 KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 29/51 (56%)
Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
KC AC+KTVY +++ + R +HK CF C C+ L + E +YC+
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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%)
Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
G + C C VY EKV G +HKSCF+C+ G + + +G +YCK
Sbjct: 6 GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 60
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%)
Query: 7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
G C C + VY +K+ + +HK+CFRC C +L+ +G +YC+ + +
Sbjct: 6 GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAK 65
Query: 67 LF 68
F
Sbjct: 66 NF 67
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And
Glycine- Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%)
Query: 7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
G KC AC +TVY +++ D R +H+ CF C C+ L + +YC+ + +
Sbjct: 5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGK 64
Query: 67 LFKRTG 72
+ G
Sbjct: 65 KYGPKG 70
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%)
Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQ 166
G KC C TVY E+V +G +H+ CF C + + H+ +YCK + +
Sbjct: 5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGK 64
Query: 167 LIKEKG 172
KG
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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 27/64 (42%), Gaps = 1/64 (1%)
Query: 106 GGTREKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
G C CK P EK V+ NG YH+ CF C+ + EGR YC+H
Sbjct: 8 GSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 67
Query: 165 NQLI 168
L
Sbjct: 68 QMLF 71
Score = 34.7 bits (78), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 25 LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
+ ++ +YH+ CF C C G + FEG YC F LF
Sbjct: 28 VNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 112 CVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLI 168
C CK P EK V+ NG YH+ CF C+ + EGR YC+H L
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71
Score = 34.7 bits (78), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 29/75 (38%), Gaps = 3/75 (4%)
Query: 1 MAAAFAGTQQKCMACDKTVYLVDKLTADN-RIYHKACFRCHHCKGTLKLGNYNSFEGVLY 59
MA A A C C +K+ N +YH+ CF C C G + FEG Y
Sbjct: 5 MANALASA--TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKY 62
Query: 60 CRPHFDQLFKRTGSL 74
C F LF L
Sbjct: 63 CEHDFQMLFAPCWIL 77
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 112 CVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLI 168
C CK P EK V+ NG YH+ CF C+ + EGR YC+H L
Sbjct: 10 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 67
Score = 34.7 bits (78), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 1 MAAAFAGTQQKCMACDKTVYLVDKLTADN-RIYHKACFRCHHCKGTLKLGNYNSFEGVLY 59
MA A A C C +K+ N +YH+ CF C C G + FEG Y
Sbjct: 1 MANALASA--TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKY 58
Query: 60 CRPHFDQLF 68
C F LF
Sbjct: 59 CEHDFQMLF 67
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
KC C++ V L + L+A + ++H CF C C + G++ +G +C H+
Sbjct: 17 KCGGCNRPV-LENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHY 69
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQ 166
KC GC V +S T +H CF C S ++ +GR +C+ H++
Sbjct: 17 KCGGCNRPVL-ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHH 71
>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 = 35.8 bits (81), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 27/64 (42%), Gaps = 1/64 (1%)
Query: 106 GGTREKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
G C C+ P E+ V+ NG YH+ CF C+ + EGR YC+H
Sbjct: 8 GSANAVCQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDF 67
Query: 165 NQLI 168
L
Sbjct: 68 QMLF 71
Score = 33.9 bits (76), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 12 CMACDKTVYLVDKLTADN-RIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
C C +++ N +YH+ CF C C G + FEG YC F LF
Sbjct: 14 CQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLF 71
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
C C + + L A ++ +H +CF+C C L G Y S +GV YC + F
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL-TGEYISKDGVPYCESDYHAQF 73
Score = 30.0 bits (66), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKH-HHNQL 167
C GCK + + + +H SCFKC VI YI+ +G YC+ +H Q
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCS-VILTGEYISKDGVPYCESDYHAQF 73
>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 = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 37/160 (23%), Positives = 61/160 (38%), Gaps = 48/160 (30%)
Query: 11 KCMACDKTVYLVDK--LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
+C C++ +++DK L +R +H +C +C C+ L + S G +YC+ F F
Sbjct: 8 QCAGCNQ--HILDKFILKVLDRHWHSSCLKCADCQMQLADRCF-SRAGSVYCKEDF---F 61
Query: 69 KRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-SV 127
KR G+ KC C+ + PT+ V
Sbjct: 62 KRFGT-------------------------------------KCTACQQGIPPTQVVRKA 84
Query: 128 NGTPYHKSCFKCSHGGCVISPSN--YIAHEGRLYCKHHHN 165
YH CF C ++ + Y+ +GRL CK +
Sbjct: 85 QDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124
>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 = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 32/159 (20%), Positives = 56/159 (35%), Gaps = 42/159 (26%)
Query: 8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF--EGVLYCRPHFD 65
+ ++C C + L A + +H C +C C+ L +S+ G++ CR +
Sbjct: 2 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 61
Query: 66 QLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV 125
+LF +G+ C C ++ +E V
Sbjct: 62 RLFGNSGA--------------------------------------CSACGQSIPASELV 83
Query: 126 -SVNGTPYHKSCFKCSHGGCVISPSNYIAH-EGRLYCKH 162
G YH CF CS + P + + G L+C+H
Sbjct: 84 MRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEH 122
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 7 GTQQKCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGN-YNSFEGVLYC 60
G C AC +++ + + A +YH CF C C+ L G+ ++ G L+C
Sbjct: 65 GNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC 120
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 34.3 bits (77), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 6 AGTQQKCMACDK--TVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
AG+ Q+ CDK + + + A ++ H CF C C LK Y EG LYC H
Sbjct: 19 AGSAQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETH 78
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 34.3 bits (77), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 32/159 (20%), Positives = 56/159 (35%), Gaps = 42/159 (26%)
Query: 8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF--EGVLYCRPHFD 65
+ ++C C + L A + +H C +C C+ L +S+ G++ CR +
Sbjct: 4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63
Query: 66 QLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV 125
+LF +G+ C C ++ +E V
Sbjct: 64 RLFGNSGA--------------------------------------CSACGQSIPASELV 85
Query: 126 -SVNGTPYHKSCFKCSHGGCVISPSNYIAH-EGRLYCKH 162
G YH CF CS + P + + G L+C+H
Sbjct: 86 MRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEH 124
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 7 GTQQKCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGN-YNSFEGVLYC 60
G C AC +++ + + A +YH CF C C+ L G+ ++ G L+C
Sbjct: 67 GNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC 122
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 33.9 bits (76), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 36/153 (23%), Positives = 53/153 (34%), Gaps = 44/153 (28%)
Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRT 71
C CD+ + L A +R +H C +C C L ++ E V YC+ D FKR
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCK---DDFFKRF 118
Query: 72 GSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-SVNGT 130
G+ KC C+ + PT+ V
Sbjct: 119 GT-------------------------------------KCAACQLGIPPTQVVRRAQDF 141
Query: 131 PYHKSCFKCSHGGCVISPSN--YIAHEGRLYCK 161
YH CF C ++ + Y+ + RL CK
Sbjct: 142 VYHLHCFACVVCKRQLATGDEFYLMEDSRLVCK 174
>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 = 33.1 bits (74), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 36/153 (23%), Positives = 53/153 (34%), Gaps = 44/153 (28%)
Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRT 71
C CD+ + L A +R +H C +C C L ++ E V YC+ D FKR
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCK---DDFFKRF 64
Query: 72 GSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-SVNGT 130
G+ KC C+ + PT+ V
Sbjct: 65 GT-------------------------------------KCAACQLGIPPTQVVRRAQDF 87
Query: 131 PYHKSCFKCSHGGCVISPSN--YIAHEGRLYCK 161
YH CF C ++ + Y+ + RL CK
Sbjct: 88 VYHLHCFACVVCKRQLATGDEFYLMEDSRLVCK 120
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 28/61 (45%), Gaps = 4/61 (6%)
Query: 108 TRE---KCVGC-KNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHH 163
TRE KC GC K V + V GT +HK CF CS+ VI ++ YC
Sbjct: 11 TREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTC 70
Query: 164 H 164
H
Sbjct: 71 H 71
Score = 30.0 bits (66), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNY 51
KC C K + D+ + ++HK CF C +CK + G++
Sbjct: 17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSF 58
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like
Pdz And Lim Domains Protein
Length = 90
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 25 LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
L A + +H F C HCK T+ + +G LYC +++ F
Sbjct: 40 LVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83
>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human
Four And A Half Lim Domains 1
Length = 77
Score = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 110 EKCVGCKNTVYPTEK----VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
+KC GCKN + K V+ G +H CF C ++ ++ H+ ++YC
Sbjct: 16 KKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYC 70
>pdb|2K3M|A Chain A, Rv1761c
Length = 151
Score = 30.0 bits (66), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 130 TPYHKSCFKCSHGGCVISPSNY-IAHEGRLYCKHHHNQL-IKEKGNLSQLEGEH 181
TP + F+C+ I Y +AH+GRL H N + I E +++ G H
Sbjct: 63 TPARRGFFRCNPERIQIGDWRYEVAHDGRLLAAHMVNGIVIAEDALIAEAVGPH 116
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 30.0 bits (66), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCF 137
C C VYPTEKV+ +HK+CF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 12 CMACDKTVYLVDKLTADNRIYHKACF 37
C C K VY +K+ ++ +HKACF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
+C C KT+ +T ++ +H+ C C C+ L + S + YC F +LF
Sbjct: 17 RCARCSKTL-TQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 112 CVGCKNTVYP-TEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
C CK T+ P T K+ G+ +H++CF C I ++I + + +C
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFC 57
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 12 CMACDKTVYL-VDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
C C KT+ K+ +H+ CF CH C+ + ++ + +C P +++
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEK 63
>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 = 1.7, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 25 LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC 60
+ A +R++H CF C C+ L+ ++ + E YC
Sbjct: 22 VVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYC 57
>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 = 1.9, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 7 GTQQKCMACDKTVYLVD-KLTADNRIYHKACFRCHHCKGTLKLGN 50
G C +CDK + + + +++YH CF+C C+ +G+
Sbjct: 8 GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGD 52
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEG 56
+C +CD+ + + ++A + YH CF C C+ G+ +F G
Sbjct: 17 RCFSCDQFIE-GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNG 61
>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 = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 29/63 (46%), Gaps = 2/63 (3%)
Query: 8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF--EGVLYCRPHFD 65
+ ++C C + L A + +H C +C C+ L +S+ G++ CR +
Sbjct: 4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63
Query: 66 QLF 68
+LF
Sbjct: 64 RLF 66
>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 = 3.0, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 7 GTQQKCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGN 50
G C +CDK + + + +++YH CF+C C+ +G+
Sbjct: 6 GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGD 50
>pdb|2G18|A Chain A, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|B Chain B, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|C Chain C, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|D Chain D, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|E Chain E, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|F Chain F, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|G Chain G, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|H Chain H, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|I Chain I, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|J Chain J, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|K Chain K, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
pdb|2G18|L Chain L, Crystal Structure Of Nostoc Sp. 7120
Phycocyanobilin:ferredoxin Oxidoreductase (Pcya)
Apoprotein
Length = 253
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 23 DKLTADNRIYHKACFRCHHCKGTLKLGN-YNSFEGVLYCRPHFD 65
+KLT +NR Y FR H + K+GN + V++ RP +D
Sbjct: 61 EKLTIENRCYQTPQFRKMHLE-LAKVGNMLDILHCVMFPRPEYD 103
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 24 KLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
KL + +H+ CF C C+ L ++ +G YC P ++ F
Sbjct: 21 KLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF 65
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 2/61 (3%)
Query: 10 QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF--EGVLYCRPHFDQL 67
++C C + L A + +H C +C C+ L +S+ G++ CR + +L
Sbjct: 62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 121
Query: 68 F 68
F
Sbjct: 122 F 122
>pdb|2AYD|A Chain A, Crystal Structure Of The C-Terminal Wrky Domainof Atwrky1,
An Sa-Induced And Partially Npr1-Dependent Transcription
Factor
Length = 76
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 126 SVNGTPYHKSCFKCSHGGCVI 146
SV G+PY +S ++CS GC +
Sbjct: 27 SVKGSPYPRSYYRCSSPGCPV 47
>pdb|3D89|A Chain A, Crystal Structure Of A Soluble Rieske Ferredoxin From Mus
Musculus
Length = 157
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 25/59 (42%), Gaps = 3/59 (5%)
Query: 32 YHKACFRCHHCKGTLKLGNYNSFEG--VLYCRPHFDQLFKRTGS-LDKSFEGTPKIAKP 87
YH RC+H G L LG F G + C H ++ TG L +S AKP
Sbjct: 50 YHAMDIRCYHSGGPLHLGEIEDFNGQSCIVCPWHKYKITLATGEGLYQSINPKDPSAKP 108
>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 = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
C+ C K + +T + +HK CF C C+ L + + + YC F L+
Sbjct: 8 CVQCKKPI-TTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
CV CK + T V+ P+HK CF C+ +S + A + YC
Sbjct: 8 CVQCKKPI-TTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYC 55
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 26.6 bits (57), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 17/38 (44%)
Query: 25 LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRP 62
+ A N +H CFRC C+ L + G CRP
Sbjct: 20 IKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRP 57
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 0.134 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,664,664
Number of Sequences: 62578
Number of extensions: 283784
Number of successful extensions: 632
Number of sequences better than 100.0: 72
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 40
Number of HSP's that attempted gapping in prelim test: 528
Number of HSP's gapped (non-prelim): 130
length of query: 199
length of database: 14,973,337
effective HSP length: 94
effective length of query: 105
effective length of database: 9,091,005
effective search space: 954555525
effective search space used: 954555525
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: 49 (23.5 bits)