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= psy14113
(543 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 86.3 bits (212), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 36/65 (55%), Positives = 49/65 (75%)
Query: 398 FQQTAEKCAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDY 457
+ T EKCA C I++ IL+AMGK+YHPGCF C +C+ LDG+PFTVD ++I+C+ D+
Sbjct: 11 YVATLEKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDF 70
Query: 458 HRMFA 462
HR FA
Sbjct: 71 HRKFA 75
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAF-YNVHGRVYCEEDY 372
C TC + + + +AMG YH CF C C R L G F + +++C ED+
Sbjct: 18 CATCSQPILD--RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDF 70
>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 = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 40/130 (30%), Positives = 61/130 (46%), Gaps = 13/130 (10%)
Query: 397 GFQQTAEKCAICG-HLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVN 455
G Q +CA C H++ + IL+ + + +H C +C C L F+ +YC
Sbjct: 1 GSMQQIPQCAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRCFSRA--GSVYCKE 58
Query: 456 DYHRMFAPKCAACGKGITPVEGTEETVRVVSMDKDF--HVDCYMCEDCGLQLTDEPDKRC 513
D+ + F KC AC +GI P + VV +DF H+ C+ C C QL D+
Sbjct: 59 DFFKRFGTKCTACQQGIPPTQ-------VVRKAQDFVYHLHCFACIICNRQLA-TGDEFY 110
Query: 514 YPLQGRLMCR 523
GRL+C+
Sbjct: 111 LMEDGRLVCK 120
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 334 QAMGNLYHTNCFICCSCGRAL-RGKAFYNVH-GRVYCEEDY 372
+A +YH +CF C C R L G FY + GR+ C+EDY
Sbjct: 83 KAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDY 123
>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 = 55.8 bits (133), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 40/123 (32%), Positives = 60/123 (48%), Gaps = 13/123 (10%)
Query: 405 CAICG-HLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRMFAP 463
CA C H++ IL+A+ + +H C +C C+ L F+ +YC +D+ + F
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRG--ESVYCKDDFFKRFGT 66
Query: 464 KCAACGKGITPVEGTEETVRVVSMDKDF--HVDCYMCEDCGLQLTDEPDKRCYPLQGRLM 521
KCAAC GI P + VV +DF H+ C+ C C QL D+ RL+
Sbjct: 67 KCAACQLGIPPTQ-------VVRRAQDFVYHLHCFACVVCKRQLA-TGDEFYLMEDSRLV 118
Query: 522 CRA 524
C+A
Sbjct: 119 CKA 121
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 334 QAMGNLYHTNCFICCSCGRAL-RGKAFYNVH-GRVYCEEDY 372
+A +YH +CF C C R L G FY + R+ C+ DY
Sbjct: 83 RAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 123
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 40/123 (32%), Positives = 60/123 (48%), Gaps = 13/123 (10%)
Query: 405 CAICG-HLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRMFAP 463
CA C H++ IL+A+ + +H C +C C+ L F+ +YC +D+ + F
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRG--ESVYCKDDFFKRFGT 120
Query: 464 KCAACGKGITPVEGTEETVRVVSMDKDF--HVDCYMCEDCGLQLTDEPDKRCYPLQGRLM 521
KCAAC GI P + VV +DF H+ C+ C C QL D+ RL+
Sbjct: 121 KCAACQLGIPPTQ-------VVRRAQDFVYHLHCFACVVCKRQLA-TGDEFYLMEDSRLV 172
Query: 522 CRA 524
C+A
Sbjct: 173 CKA 175
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 334 QAMGNLYHTNCFICCSCGRAL-RGKAFYNVH-GRVYCEEDY 372
+A +YH +CF C C R L G FY + R+ C+ DY
Sbjct: 137 RAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 177
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 39/72 (54%), Gaps = 4/72 (5%)
Query: 402 AEKCAICGHLI--MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHR 459
AEKC+ CG + E ++ A GK +H CFRC C + L+ T + + +IYC Y +
Sbjct: 36 AEKCSACGDSVYAAEKVIGA-GKPWHKNCFRCAKCGKSLESTTLT-EKEGEIYCKGCYAK 93
Query: 460 MFAPKCAACGKG 471
F PK G+G
Sbjct: 94 NFGPKGFGYGQG 105
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
C CG+ V A + A G +H NCF C CG++L G +YC+ Y
Sbjct: 39 CSACGDSVYAAEKVIGA-GKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCY 91
Score = 36.6 bits (83), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 13/72 (18%)
Query: 462 APKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCG--LQLTDEPDKRCYPLQGR 519
A KC+ACG + E +V+ K +H +C+ C CG L+ T +K +G
Sbjct: 36 AEKCSACGDSVYAAE------KVIGAGKPWHKNCFRCAKCGKSLESTTLTEK-----EGE 84
Query: 520 LMCRACHLSHLS 531
+ C+ C+ +
Sbjct: 85 IYCKGCYAKNFG 96
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 39/72 (54%), Gaps = 4/72 (5%)
Query: 402 AEKCAICGHLI--MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHR 459
AEKC+ CG + E ++ A GK +H CFRC C + L+ T + + +IYC Y +
Sbjct: 36 AEKCSRCGDSVYAAEKVIGA-GKPWHKNCFRCAKCGKSLESTTLT-EKEGEIYCKGCYAK 93
Query: 460 MFAPKCAACGKG 471
F PK G+G
Sbjct: 94 NFGPKGFGYGQG 105
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
C CG+ V A + A G +H NCF C CG++L G +YC+ Y
Sbjct: 39 CSRCGDSVYAAEKVIGA-GKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCY 91
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 13/72 (18%)
Query: 462 APKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCG--LQLTDEPDKRCYPLQGR 519
A KC+ CG + E +V+ K +H +C+ C CG L+ T +K +G
Sbjct: 36 AEKCSRCGDSVYAAE------KVIGAGKPWHKNCFRCAKCGKSLESTTLTEK-----EGE 84
Query: 520 LMCRACHLSHLS 531
+ C+ C+ +
Sbjct: 85 IYCKGCYAKNFG 96
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 28/50 (56%)
Query: 324 EKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDYL 373
E V G G A+ ++H CF+C +C LRG+ FY V R YCE Y+
Sbjct: 13 EDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYV 62
Score = 35.4 bits (80), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 484 VVSMDKDFHVDCYMCEDCGLQLTDEPDKRCYPLQGRLMCRACHLSHL 530
VV++D+ FHV C++C C QL + Y ++ R C C+++ L
Sbjct: 22 VVALDRVFHVGCFVCSTCRAQLRGQ---HFYAVERRAYCEGCYVATL 65
>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 = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%)
Query: 317 GICHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
+C C + + A + + G LYH +CF+C C R FY GR YCE D+
Sbjct: 12 AVCQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDF 67
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 5/51 (9%)
Query: 414 EMILQAMGKSYHPGCFRCCLCNECLDGVP--FTVDVDNKIYCVNDYHRMFA 462
E I+ + G+ YH CF +C +C P + + + YC +D+ +FA
Sbjct: 25 ERIVNSNGELYHEHCF---VCAQCFRPFPEGLFYEFEGRKYCEHDFQMLFA 72
>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 = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 317 GICHTCGEKVTGAGQACQAMGNLYHTNCFICCSC-GRALRGKAFYNVHGRVYCEED 371
G C CG+ + + +A GN+YH CF C +C R + G F+ ++G ++CE D
Sbjct: 68 GACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 123
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 36/143 (25%), Positives = 55/143 (38%), Gaps = 30/143 (20%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALR--GKAFYNVHGRVYCEEDYLYSG 376
C CG K+ AM + +H+ C C SC L G + Y G + C DY+
Sbjct: 6 CAGCGGKIADR-FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR-- 62
Query: 377 FQQTAEKCAICGHLIMEMYSGFQQTAEKCAICGHLI--MEMILQAMGKSYHPGCFRCCLC 434
+ C+ CG I E++++A G YH CF C C
Sbjct: 63 ---------------------LFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTC 101
Query: 435 -NECLDGVPFTVDVDNKIYCVND 456
N + G F ++ ++C +D
Sbjct: 102 RNRLVPGDRFHY-INGSLFCEHD 123
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 317 GICHTCGEKVTGAGQACQAMGNLYHTNCFICCSC-GRALRGKAFYNVHGRVYCEED 371
G C CG+ + + +A GN+YH CF C +C R + G F+ ++G ++CE D
Sbjct: 70 GACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 125
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 36/143 (25%), Positives = 55/143 (38%), Gaps = 30/143 (20%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALR--GKAFYNVHGRVYCEEDYLYSG 376
C CG K+ AM + +H+ C C SC L G + Y G + C DY+
Sbjct: 8 CAGCGGKIADR-FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR-- 64
Query: 377 FQQTAEKCAICGHLIMEMYSGFQQTAEKCAICGHLI--MEMILQAMGKSYHPGCFRCCLC 434
+ C+ CG I E++++A G YH CF C C
Sbjct: 65 ---------------------LFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTC 103
Query: 435 -NECLDGVPFTVDVDNKIYCVND 456
N + G F ++ ++C +D
Sbjct: 104 RNRLVPGDRFHY-INGSLFCEHD 125
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 24/54 (44%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
C C A + + G LYH CF+C C + FY GR YCE D+
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 67
Score = 33.5 bits (75), Expect = 0.28, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 401 TAEKCAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVP--FTVDVDNKIYCVNDYH 458
T E+C G E I+ + G+ YH CF +C +C P + + + YC +D+
Sbjct: 13 TCERCK-GGFAPAEKIVNSNGELYHEQCF---VCAQCFQQFPEGLFYEFEGRKYCEHDFQ 68
Query: 459 RMFAP 463
+FAP
Sbjct: 69 MLFAP 73
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 402 AEKCAICGHLI--MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHR 459
++ C CG + E ++ A GKS+H CFRC C + L+ D D +IYC Y +
Sbjct: 8 SDGCPRCGQAVYAAEKVIGA-GKSWHKSCFRCAKCGKSLESTTL-ADKDGEIYCKGCYAK 65
Query: 460 MFAPK 464
F PK
Sbjct: 66 NFGPK 70
Score = 35.8 bits (81), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 7/49 (14%)
Query: 324 EKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
EKV GAG++ +H +CF C CG++L + G +YC+ Y
Sbjct: 22 EKVIGAGKS-------WHKSCFRCAKCGKSLESTTLADKDGEIYCKGCY 63
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 13/69 (18%)
Query: 465 CAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCG--LQLTDEPDKRCYPLQGRLMC 522
C CG+ + E +V+ K +H C+ C CG L+ T DK G + C
Sbjct: 11 CPRCGQAVYAAE------KVIGAGKSWHKSCFRCAKCGKSLESTTLADK-----DGEIYC 59
Query: 523 RACHLSHLS 531
+ C+ +
Sbjct: 60 KGCYAKNFG 68
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 402 AEKCAICGHLI--MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHR 459
++ C CG + E ++ A GKS+H CFRC C + L+ D D +IYC Y +
Sbjct: 115 SDGCPRCGQAVYAAEKVIGA-GKSWHKSCFRCAKCGKSLESTTL-ADKDGEIYCKGCYAK 172
Query: 460 MFAPK 464
F PK
Sbjct: 173 NFGPK 177
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 40/180 (22%), Positives = 60/180 (33%), Gaps = 63/180 (35%)
Query: 402 AEKCAICGHLI-MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDY--- 457
+KC +C + +Q G S+H CF C +C + LD V D +IYC + Y
Sbjct: 7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65
Query: 458 --------------------------------HRMFAPK-------------CAACGKGI 472
HR P C CG+ +
Sbjct: 66 YGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAV 125
Query: 473 TPVEGTEETVRVVSMDKDFHVDCYMCEDCG--LQLTDEPDKRCYPLQGRLMCRACHLSHL 530
E +V+ K +H C+ C CG L+ T DK G + C+ C+ +
Sbjct: 126 YAAE------KVIGAGKSWHKSCFRCAKCGKSLESTTLADK-----DGEIYCKGCYAKNF 174
Score = 35.8 bits (81), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 7/49 (14%)
Query: 324 EKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
EKV GAG++ +H +CF C CG++L + G +YC+ Y
Sbjct: 129 EKVIGAGKS-------WHKSCFRCAKCGKSLESTTLADKDGEIYCKGCY 170
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 18/39 (46%), Positives = 24/39 (61%)
Query: 405 CAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPF 443
C CG I+ +++AM S+HP CFRC LC E L + F
Sbjct: 8 CHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGF 46
Score = 35.8 bits (81), Expect = 0.055, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYC 368
CH CGE + G + +AM N +H CF C C L F GR C
Sbjct: 8 CHQCGEFIIG--RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLC 55
>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 = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 31/94 (32%), Positives = 45/94 (47%), Gaps = 20/94 (21%)
Query: 417 LQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIY-------CVNDYHRMFAPK--CAA 467
L+A+ + +H C C LC C G +V ++Y C DY R+F CA+
Sbjct: 18 LKAIDQYWHEDCLSCDLCG-CRLG-----EVGRRLYYKLGRKLCRRDYLRLFGQDGLCAS 71
Query: 468 CGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDC 501
C K I E T+RV DK +H++C+ C C
Sbjct: 72 CDKRI---RAYEMTMRV--KDKVYHLECFKCAAC 100
Score = 37.7 bits (86), Expect = 0.017, Method: Composition-based stats.
Identities = 32/120 (26%), Positives = 43/120 (35%), Gaps = 25/120 (20%)
Query: 321 TCG--EKVTGAGQACQAMGNLYHTNCFIC--CSCGRALRGKAFYNVHGRVYCEEDYLYSG 376
TCG ++ G +A+ +H +C C C C G+ Y GR C DYL
Sbjct: 4 TCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLF 63
Query: 377 FQQTAEKCAICGHLIMEMYSGFQQTAEKCAICGHLIMEMILQAMGKSYHPGCFRCCLCNE 436
Q CA C I EM ++ K YH CF+C C +
Sbjct: 64 GQDGL--CASCDKRIRA-------------------YEMTMRVKDKVYHLECFKCAACQK 102
Score = 33.5 bits (75), Expect = 0.31, Method: Composition-based stats.
Identities = 13/56 (23%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 317 GICHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRAL-RGKAFYNVHGRVYCEED 371
G+C +C +++ + +YH CF C +C + G + ++ + CE+D
Sbjct: 67 GLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQD 122
Score = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 486 SMDKDFHVDCYMCEDCGLQLTDEPDKRCYPLQGRLMCRACHL 527
++D+ +H DC C+ CG +L E +R Y GR +CR +L
Sbjct: 20 AIDQYWHEDCLSCDLCGCRL-GEVGRRLYYKLGRKLCRRDYL 60
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 24/54 (44%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
C C A + + G LYH CF+C C + FY GR YCE D+
Sbjct: 14 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 67
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 401 TAEKCAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVP--FTVDVDNKIYCVNDYH 458
T E+C G E I+ + G+ YH CF +C +C P + + + YC +D+
Sbjct: 13 TCERCKG-GFAPAEKIVNSNGELYHEQCF---VCAQCFQQFPEGLFYEFEGRKYCEHDFQ 68
Query: 459 RMFA 462
+FA
Sbjct: 69 MLFA 72
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 24/54 (44%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
C C A + + G LYH CF+C C + FY GR YCE D+
Sbjct: 10 CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 63
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 401 TAEKCAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVP--FTVDVDNKIYCVNDYH 458
T E+C G E I+ + G+ YH CF +C +C P + + + YC +D+
Sbjct: 9 TCERCKG-GFAPAEKIVNSNGELYHEQCF---VCAQCFQQFPEGLFYEFEGRKYCEHDFQ 64
Query: 459 RMFAP 463
+FAP
Sbjct: 65 MLFAP 69
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz
And Lim Domains Protein
Length = 90
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 405 CAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRMFA 462
CA C +I L A+GKS+HP F C C + + F V+ +YC Y + FA
Sbjct: 28 CAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGF-VEEKGALYCELCYEKFFA 84
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 318 ICHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCE 369
+C CG + GA +A H CF+C C L+ K ++ V G +YCE
Sbjct: 27 LCDKCGSGIVGA--VVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCE 76
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 396 SGFQQTAEKCAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYC 453
+G Q C CG I+ +++A K HP CF C CN L + V+ ++YC
Sbjct: 19 AGSAQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFF-VEGELYC 75
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 10/60 (16%)
Query: 463 PKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCGLQLTDEPDKRCYPLQGRLMC 522
P C CG GI V + DK H +C++C DC L L K + ++G L C
Sbjct: 26 PLCDKCGSGIVGAV-------VKARDKYRHPECFVCADCNLNL---KQKGYFFVEGELYC 75
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine-
Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 402 AEKCAICGHLIMEMI-LQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRM 460
KC CG + +Q G+S+H CF C +C + LD + D ++YC + Y +
Sbjct: 7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCKSCYGKK 65
Query: 461 FAPKCAACGKGITPVE 476
+ PK G+G +
Sbjct: 66 YGPKGYGYGQGAGTLN 81
>pdb|2EHE|A Chain A, Solution Structure Of The First Lim Domain From Human Four
And A Half Lim Domains Protein 3
Length = 82
Score = 36.2 bits (82), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 402 AEKCAIC----GHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDY 457
A CA C GH E+ + + +H GCFRCC C L PFT D+++ C + Y
Sbjct: 15 ANTCAECQQLIGHDSRELFYE--DRHFHEGCFRCCRCQRSLADEPFTCQ-DSELLCNDCY 71
Query: 458 HRMFA 462
F+
Sbjct: 72 CSAFS 76
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 10/76 (13%)
Query: 457 YHRMFAPKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCGLQLTDEPDKRCYPL 516
Y FA CA C + I ++ + D+ FH C+ C C L DEP +
Sbjct: 10 YDNTFANTCAECQQLIG-----HDSRELFYEDRHFHEGCFRCCRCQRSLADEP----FTC 60
Query: 517 Q-GRLMCRACHLSHLS 531
Q L+C C+ S S
Sbjct: 61 QDSELLCNDCYCSAFS 76
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 36.2 bits (82), Expect = 0.052, Method: Composition-based stats.
Identities = 13/56 (23%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 317 GICHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALR-GKAFYNVHGRVYCEED 371
G+C +C +++ + +YH CF C +C + G + ++ + CE+D
Sbjct: 11 GLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQD 66
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 7/47 (14%)
Query: 457 YHRMFAPK--CAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDC 501
Y R+F CA+C K I E T+RV DK +H++C+ C C
Sbjct: 3 YLRLFGQDGLCASCDKRI---RAYEMTMRV--KDKVYHLECFKCAAC 44
Score = 30.0 bits (66), Expect = 3.4, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 405 CAICGHLI--MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYH 458
CA C I EM ++ K YH CF+C C + + +++ I C D +
Sbjct: 13 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDIY 68
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 36.2 bits (82), Expect = 0.054, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 31/73 (42%), Gaps = 6/73 (8%)
Query: 424 YHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRMFAPKCAACGKGITPVEGTEETVR 483
+H CFRC C L F V DNKI C R +PKC C K I + E
Sbjct: 29 WHDTCFRCAKCLHPLANETF-VAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQNVEYKG 87
Query: 484 VVSMDKDFHVDCY 496
V +H DC+
Sbjct: 88 TV-----WHKDCF 95
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 35.0 bits (79), Expect = 0.10, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 335 AMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
AM ++H CF+C C + +F+ + GR +CE Y
Sbjct: 32 AMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHY 69
Score = 34.3 bits (77), Expect = 0.20, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 404 KCAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYH 458
KC C ++E L AM +HP CF C C F ++D + +C YH
Sbjct: 17 KCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSF-FELDGRPFCELHYH 70
Score = 33.5 bits (75), Expect = 0.30, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 16/80 (20%)
Query: 456 DYHRMFAPKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCGLQLTDEPDKRCYP 515
D+ MF+PKC C + + + +MD +H +C++C DC T +
Sbjct: 9 DFLAMFSPKCGGCNRPVL-------ENYLSAMDTVWHPECFVCGDC---FTSFSTGSFFE 58
Query: 516 LQGRLMCRACHLSHLSRHHQ 535
L GR C L HH+
Sbjct: 59 LDGRPFC------ELHYHHR 72
>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 = 35.0 bits (79), Expect = 0.10, Method: Composition-based stats.
Identities = 13/56 (23%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 317 GICHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALR-GKAFYNVHGRVYCEED 371
G+C +C +++ + +YH CF C +C + G + ++ + CE+D
Sbjct: 9 GLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQD 64
Score = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 7/47 (14%)
Query: 457 YHRMFAPK--CAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDC 501
Y R+F CA+C K I E T+RV DK +H++C+ C C
Sbjct: 1 YLRLFGQDGLCASCDKRI---RAYEMTMRV--KDKVYHLECFKCAAC 42
Score = 29.3 bits (64), Expect = 5.9, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 405 CAICGHLI--MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYH 458
CA C I EM ++ K YH CF+C C + + +++ I C D +
Sbjct: 11 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDIY 66
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 463 PKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCGLQLTD 507
PKC C K + E RV S+ KD+H C CE CG LT
Sbjct: 1 PKCPKCDKEVYFAE------RVTSLGKDWHRPCLKCEKCGKTLTS 39
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim
Protein 3
Length = 80
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
C C E++ GQ+ A+ +H +CF C +C L G+ + + G YCE DY
Sbjct: 18 CAGCKEEIK-HGQSLLALDKQWHVSCFKCQTCSVILTGE-YISKDGVPYCESDY 69
Score = 32.7 bits (73), Expect = 0.51, Method: Composition-based stats.
Identities = 21/59 (35%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 405 CAICGHLIME-MILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRMFA 462
CA C I L A+ K +H CF+C C+ L G + D YC +DYH F
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGE--YISKDGVPYCESDYHAQFG 74
Score = 29.6 bits (65), Expect = 4.3, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 26/43 (60%), Gaps = 4/43 (9%)
Query: 470 KGITPVEGTEETVR----VVSMDKDFHVDCYMCEDCGLQLTDE 508
+G + G +E ++ ++++DK +HV C+ C+ C + LT E
Sbjct: 13 RGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGE 55
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 34.7 bits (78), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 402 AEKCAICGHLIMEMILQAMGKSYHPGCFRCCLC 434
+C C I ++ A+GK+YHP CF C +C
Sbjct: 15 GTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVC 47
Score = 32.7 bits (73), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 9/72 (12%)
Query: 456 DYHRMFAPKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCGLQLTDEPDKRCYP 515
DY R++ +C +C + I E V ++ K +H DC++C C +L P R
Sbjct: 9 DYQRLYGTRCFSCDQFI-------EGEVVSALGKTYHPDCFVCAVC--RLPFPPGDRVTF 59
Query: 516 LQGRLMCRACHL 527
MC+ C L
Sbjct: 60 NGKECMCQKCSL 71
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3
Length = 58
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 404 KCAICGHLI--MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRMF 461
KC CG + E ++ GK +H CFRC +C + L+ T D D ++YC Y + F
Sbjct: 1 KCPRCGKSVYAAEKVMGG-GKPWHKTCFRCAICGKSLESTNVT-DKDGELYCKVCYAKNF 58
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 13/69 (18%)
Query: 464 KCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCG--LQLTDEPDKRCYPLQGRLM 521
KC CGK + E +V+ K +H C+ C CG L+ T+ DK G L
Sbjct: 1 KCPRCGKSVYAAE------KVMGGGKPWHKTCFRCAICGKSLESTNVTDK-----DGELY 49
Query: 522 CRACHLSHL 530
C+ C+ +
Sbjct: 50 CKVCYAKNF 58
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
C CG+ V A + G +H CF C CG++L + G +YC+ Y
Sbjct: 2 CPRCGKSVYAAEKV-MGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCY 54
>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 = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 2/55 (3%)
Query: 318 ICHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
IC C + G + AMG +H F+C C + G Y G YCE Y
Sbjct: 7 ICGACRRPIEG--RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHY 59
>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 = 33.5 bits (75), Expect = 0.34, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALR--GKAFYNVHGRVYCEEDYL 373
C CG K+ AM + +H+ C C SC L G + Y G + C DY+
Sbjct: 8 CAGCGGKIADRF-LLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 33.1 bits (74), Expect = 0.44, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALR--GKAFYNVHGRVYCEEDYL 373
C CG K+ AM + +H+ C C SC L G + Y G + C DY+
Sbjct: 64 CAGCGGKIADRF-LLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 119
>pdb|3NVJ|A Chain A, Crystal Structure Of The C143aC166A MUTANT OF ERO1P
Length = 393
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 324 EKVTGAG--QACQAMGNLYHTNCFICCSCGRALRGKAFYNV 362
E+ TG G QA Q +Y NCF G +L AFY +
Sbjct: 148 ERFTGYGGKQAGQIWSTIYQDNCFTIGETGESLAKDAFYRL 188
>pdb|3M31|A Chain A, Structure Of The C150aC295A MUTANT OF S. CEREVISIAE ERO1P
Length = 388
Score = 32.7 bits (73), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 324 EKVTGAG--QACQAMGNLYHTNCFICCSCGRALRGKAFYNV 362
E+ TG G QA Q +Y NCF G +L AFY +
Sbjct: 147 ERFTGYGGKQAGQIWSTIYQDNCFTIGETGESLAKDAFYRL 187
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 32.7 bits (73), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEEDY 372
C C + +T G Q +H +CF+C +C + L G+ F V + YC + Y
Sbjct: 8 CVKCNKAITSGGITYQDQ--PWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCY 59
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 402 AEKCAICGHLIMEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRMF 461
+ C C I + + +H CF C C++ L G FT V+++ YCV+ Y
Sbjct: 5 SSGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTA-VEDQYYCVDCYKNFV 63
Query: 462 A 462
+
Sbjct: 64 S 64
>pdb|1RQ1|A Chain A, Structure Of Ero1p, Source Of Disulfide Bonds For
Oxidative Protein Folding In The Cell
Length = 386
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 324 EKVTGAG--QACQAMGNLYHTNCFICCSCGRALRGKAFYNV 362
E+ TG G QA Q +Y NCF G +L AFY +
Sbjct: 148 ERFTGYGGKQAGQIWSTIYQDNCFTIGETGESLAKDAFYRL 188
>pdb|1RP4|A Chain A, Structure Of Ero1p, Source Of Disulfide Bonds For
Oxidative Protein Folding In The Cell
Length = 389
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 324 EKVTGAG--QACQAMGNLYHTNCFICCSCGRALRGKAFYNV 362
E+ TG G QA Q +Y NCF G +L AFY +
Sbjct: 148 ERFTGYGGKQAGQIWSTIYQDNCFTIGETGESLAKDAFYRL 188
>pdb|1J2O|A Chain A, Structure Of Flin2, A Complex Containing The N-Terminal
Lim Domain Of Lmo2 And Ldb1-Lid
Length = 114
Score = 32.3 bits (72), Expect = 0.62, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 486 SMDKDFHVDCYMCEDCGLQLTDEPDKRCYPLQGRLMCRACHL 527
++D+ +H DC C+ CG +L E +R Y GR +CR +L
Sbjct: 21 AIDQYWHEDCLSCDLCGCRL-GEVGRRLYYKLGRKLCRRDYL 61
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 321 TCG--EKVTGAGQACQAMGNLYHTNCFIC--CSCGRALRGKAFYNVHGRVYCEEDYL 373
TCG ++ G +A+ +H +C C C C G+ Y GR C DYL
Sbjct: 5 TCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 61
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 32.0 bits (71), Expect = 0.92, Method: Composition-based stats.
Identities = 12/50 (24%), Positives = 23/50 (46%)
Query: 319 CHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYC 368
C C + + Q + G ++H +CF C +C + + +F+ YC
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYC 67
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein
Lost In Neoplasm
Length = 91
Score = 32.0 bits (71), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 403 EKCAICGHLI--MEMILQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHRM 460
E C C + ME +L A + +H CFRC CN L + + +IYC ++++
Sbjct: 16 ETCVECQKTVYPMERLL-ANQQVFHISCFRCSYCNNKLS-LGTYASLHGRIYCKPHFNQL 73
Query: 461 FAPK 464
F K
Sbjct: 74 FKSK 77
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 339 LYHTNCFICCSCGRALRGKAFYNVHGRVYCE 369
++H +CF C C L + ++HGR+YC+
Sbjct: 37 VFHISCFRCSYCNNKLSLGTYASLHGRIYCK 67
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 465 CAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCGLQLTDEPDKRCYPLQGRLMCR 523
C C K + P+E R+++ + FH+ C+ C C +L+ L GR+ C+
Sbjct: 18 CVECQKTVYPME------RLLANQQVFHISCFRCSYCNNKLSLGTYA---SLHGRIYCK 67
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl Terminal
Lim Domain Protein 1
Length = 79
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 318 ICHTCGEKVTGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEE 370
+C CG + G + H C++C CG L+ K + V ++YCE+
Sbjct: 17 MCDKCGTGIVGV--FVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEK 67
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 20/43 (46%), Gaps = 7/43 (16%)
Query: 463 PKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDCGLQL 505
P C CG GI V V D+ H +CY+C DCG L
Sbjct: 16 PMCDKCGTGIV-------GVFVKLRDRHRHPECYVCTDCGTNL 51
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 319 CHTCGEKV---TGAGQACQAMGNLYHTNCFICCSCGRALRGKAFYNVHGRVYCEE 370
C C + + TGA C + +H+ CF C C +L GK F + ++C++
Sbjct: 8 CVACSKPISGLTGAKFIC-FQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQK 61
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3
Length = 60
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 417 LQAMGKSYHPGCFRCCLCNECLDGVPFTVDVDNKIYCVNDYHR 459
+Q G+S+H CF C C + LD +++IYC Y R
Sbjct: 17 IQCNGRSFHKTCFHCMACRKALDSTTVAAH-ESEIYCKVCYGR 58
>pdb|3NKS|A Chain A, Structure Of Human Protoporphyrinogen Ix Oxidase
Length = 477
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 37/90 (41%), Gaps = 6/90 (6%)
Query: 156 NAFQFDRKAQPQVPQGLK-YIRDYPPYEAPPVYENIQELNKPPKPGPQVPVFGGEHRQMA 214
N F + A +P GL+ +R PP+ P + ++EL KP P V R++
Sbjct: 96 NRFLYVGGALHALPTGLRGLLRPSPPFSKPLFWAGLRELTKPRGKEPDETVHSFAQRRLG 155
Query: 215 IALTSPPVYSRANTVTSKAVPVKTATSLSV 244
P V S A + V + LS+
Sbjct: 156 -----PEVASLAMDSLCRGVFAGNSRELSI 180
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 29/71 (40%), Gaps = 13/71 (18%)
Query: 457 YHRMFAPKCAACGKGITPVEGTEETVRVVSMDKDFHVDCYMCEDC-----GLQLTD-EPD 510
Y FAP+CA C K +T V D+ +H +C +C C G Q T + D
Sbjct: 10 YENKFAPRCARCSKTLT-------QGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDED 62
Query: 511 KRCYPLQGRLM 521
C G L
Sbjct: 63 PYCVACFGELF 73
>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 = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 342 TNCFICCSCGRALRGKAFYNVHGRVYC 368
T CF+C C + L G+ F V G V+C
Sbjct: 91 TECFLCSCCSKCLIGQKFMPVEGMVFC 117
>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 = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 342 TNCFICCSCGRALRGKAFYNVHGRVYC 368
T CF+C C + L G+ F V G V+C
Sbjct: 30 TECFLCSCCSKCLIGQKFMPVEGMVFC 56
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
0.321 0.137 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,217,912
Number of Sequences: 62578
Number of extensions: 572864
Number of successful extensions: 1331
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1182
Number of HSP's gapped (non-prelim): 142
length of query: 543
length of database: 14,973,337
effective HSP length: 104
effective length of query: 439
effective length of database: 8,465,225
effective search space: 3716233775
effective search space used: 3716233775
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)