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= psy17880
(120 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 62.4 bits (150), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 25/42 (59%), Positives = 32/42 (76%)
Query: 56 DYQKKFGTKCAQCGEYVEGEVVTALGKTYHQKCFTCARCRFS 97
DYQ+ +GT+C C +++EGEVV+ALGKTYH CF CA CR
Sbjct: 9 DYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLP 50
Score = 32.0 bits (71), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 6 CTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDG 49
C SC + GEV+ K +H CF C+VC+ G +G
Sbjct: 18 CFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNG 61
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 58.9 bits (141), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 48/97 (49%), Gaps = 7/97 (7%)
Query: 6 CTSCKKKCSGE-VLRVQDKYFHITCFQCSVCKNSLAQGGY--FNKDGAYYCTSDYQKKFG 62
C C K + +L D Y+H C +CS C+ L G + K G C +DY + FG
Sbjct: 8 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 67
Query: 63 TK--CAQCGEYVEGE--VVTALGKTYHQKCFTCARCR 95
C+ CG+ + V+ A G YH KCFTC+ CR
Sbjct: 68 NSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCR 104
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 6 CTSCKKKCSGE--VLRVQDKYFHITCFQCSVCKNSLAQGGYFN-KDGAYYCTSD 56
C++C + V+R Q +H+ CF CS C+N L G F+ +G+ +C D
Sbjct: 72 CSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 125
>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 = 58.9 bits (141), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 48/97 (49%), Gaps = 7/97 (7%)
Query: 6 CTSCKKKCSGE-VLRVQDKYFHITCFQCSVCKNSLAQGGY--FNKDGAYYCTSDYQKKFG 62
C C K + +L D Y+H C +CS C+ L G + K G C +DY + FG
Sbjct: 6 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 65
Query: 63 TK--CAQCGEYVEGE--VVTALGKTYHQKCFTCARCR 95
C+ CG+ + V+ A G YH KCFTC+ CR
Sbjct: 66 NSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCR 102
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 6 CTSCKKKCSGE--VLRVQDKYFHITCFQCSVCKNSLAQGGYFN-KDGAYYCTSD 56
C++C + V+R Q +H+ CF CS C+N L G F+ +G+ +C D
Sbjct: 70 CSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 123
>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 = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 33/97 (34%), Positives = 51/97 (52%), Gaps = 5/97 (5%)
Query: 17 VLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTKCAQCGEYVEGEV 76
+L+V D+++H +C +C+ C+ LA F++ G+ YC D+ K+FGTKC C + +
Sbjct: 21 ILKVLDRHWHSSCLKCADCQMQLADRC-FSRAGSVYCKEDFFKRFGTKCTACQQGIPPTQ 79
Query: 77 VT--ALGKTYHQKCFTCARC--RFSKKREIYNWLGGR 109
V A YH CF C C + + E Y GR
Sbjct: 80 VVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGR 116
Score = 38.5 bits (88), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 6 CTSCKK--KCSGEVLRVQDKYFHITCFQCSVCKNSLAQGG--YFNKDGAYYCTSDYQ 58
CT+C++ + V + QD +H+ CF C +C LA G Y +DG C DY+
Sbjct: 68 CTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124
>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 = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 17 VLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTKCAQCGEYVEGEV 76
+L+ D+++H C +CS C LA+ F++ + YC D+ K+FGTKCA C +
Sbjct: 21 ILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQ 79
Query: 77 VT--ALGKTYHQKCFTCARCR 95
V A YH CF C C+
Sbjct: 80 VVRRAQDFVYHLHCFACVVCK 100
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 17 VLRVQDKYFHITCFQCSVCKNSLAQGG--YFNKDGAYYCTSDYQ 58
V R QD +H+ CF C VCK LA G Y +D C +DY+
Sbjct: 81 VRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 124
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 43/81 (53%), Gaps = 3/81 (3%)
Query: 17 VLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTKCAQCGEYVEGEV 76
+L+ D+++H C +CS C LA+ F++ + YC D+ K+FGTKCA C +
Sbjct: 75 ILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQ 133
Query: 77 VT--ALGKTYHQKCFTCARCR 95
V A YH CF C C+
Sbjct: 134 VVRRAQDFVYHLHCFACVVCK 154
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 17 VLRVQDKYFHITCFQCSVCKNSLAQGG--YFNKDGAYYCTSDYQ 58
V R QD +H+ CF C VCK LA G Y +D C +DY+
Sbjct: 135 VRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding
Lim Protein 3
Length = 80
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 3 KAYCTSCKKKCS-GEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKF 61
++C CK++ G+ L DK +H++CF+C C L G Y +KDG YC SDY +F
Sbjct: 15 PSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILT-GEYISKDGVPYCESDYHAQF 73
Query: 62 GT 63
G+
Sbjct: 74 GS 75
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial
Protein Lost In Neoplasm
Length = 91
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 35/70 (50%), Gaps = 5/70 (7%)
Query: 6 CTSCKKKC-SGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTK 64
C C+K E L + FHI+CF+CS C N L+ G Y + G YC + + F +K
Sbjct: 18 CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK 77
Query: 65 CAQCGEYVEG 74
G Y EG
Sbjct: 78 ----GNYDEG 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 = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 40/84 (47%), Gaps = 6/84 (7%)
Query: 18 LRVQDKYFHITCFQCSVCKNSLAQGG--YFNKDGAYYCTSDYQKKFGTK--CAQCGEYVE 73
L+ D+Y+H C C +C L + G + K G C DY + FG CA C + +
Sbjct: 18 LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIR 77
Query: 74 GEVVT--ALGKTYHQKCFTCARCR 95
+T K YH +CF CA C+
Sbjct: 78 AYEMTMRVKDKVYHLECFKCAACQ 101
Score = 32.3 bits (72), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 6 CTSCKKKCSG--EVLRVQDKYFHITCFQCSVCKNSLAQGG-YFNKDGAYYCTSD 56
C SC K+ +RV+DK +H+ CF+C+ C+ G Y + C D
Sbjct: 69 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQD 122
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 29/57 (50%)
Query: 4 AYCTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKK 60
C C G V++ +DKY H CF C+ C +L Q GYF +G YC + + +
Sbjct: 26 PLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARAR 82
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%)
Query: 65 CAQCGEYVEGEVVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAY 111
C +CG + G VV A K H +CF CA C + K++ Y ++ G Y
Sbjct: 28 CDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELY 74
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 25/63 (39%)
Query: 1 MIKAYCTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKK 60
M C C + L D +H CF C C S + G +F DG +C Y +
Sbjct: 13 MFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHR 72
Query: 61 FGT 63
G+
Sbjct: 73 RGS 75
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 24/56 (42%)
Query: 56 DYQKKFGTKCAQCGEYVEGEVVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAY 111
D+ F KC C V ++A+ +H +CF C C S + L GR +
Sbjct: 9 DFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPF 64
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 6 CTSCKKKCSGEVLRV--QDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGT 63
C C+K + V +++++H TCF+C+ C + LA + KD C ++
Sbjct: 8 CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSP 67
Query: 64 KCAQCGEYVEG--EVVTALGKTYHQKCFT 90
KC C + + + V G +H+ CF+
Sbjct: 68 KCKGCFKAIVAGDQNVEYKGTVWHKDCFS 96
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like
Pdz And Lim Domains Protein
Length = 90
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 29/60 (48%)
Query: 4 AYCTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGT 63
C C + G L K +H F C+ CKN++A G+ + GA YC Y+K F +
Sbjct: 26 PMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFAS 85
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 65 CAQCGEYVEGEVVTALGKTYHQKCFTCARCR 95
CA C + + G + ALGK++H + F CA C+
Sbjct: 28 CAHCNQVIRGPFLVALGKSWHPEEFNCAHCK 58
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 29/62 (46%)
Query: 1 MIKAYCTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKK 60
M C +C++ G V+ K +H+ F C+ C+ ++ + G YC + Y +
Sbjct: 3 MGVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQL 62
Query: 61 FG 62
FG
Sbjct: 63 FG 64
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 29/56 (51%), Gaps = 9/56 (16%)
Query: 65 CAQCGEYVEGEVVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAYENRLGGRAY 120
C C +EG VV A+GK +H + F CA+C +LG R YE + G AY
Sbjct: 8 CGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKP-------FLGHRHYERK--GLAY 54
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 28/44 (63%), Gaps = 3/44 (6%)
Query: 54 TSDYQKKFG--TKCAQCGEYV-EGEVVTALGKTYHQKCFTCARC 94
TS + +KFG KC++CG+ V E V GK +H+ CF CA+C
Sbjct: 26 TSKFAQKFGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKC 69
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 23 KYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTK 64
K +H CF+C+ C SL K+G YC Y K FG K
Sbjct: 57 KPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 6 CTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGA--YYCTSDYQKKFGT 63
C +C + +LR K +H CF C VC L G F D +C D+ +KF +
Sbjct: 18 CATCSQPILDRILRAMGKAYHPGCFTCVVCHRGL-DGIPFTVDATSQIHCIEDFHRKFAS 76
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 64 KCAQCGEYVEGEVVTALGKTYHQKCFTCARCR 95
KCA C + + ++ A+GK YH CFTC C
Sbjct: 17 KCATCSQPILDRILRAMGKAYHPGCFTCVVCH 48
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 54 TSDYQKKFG--TKCAQCGEYV-EGEVVTALGKTYHQKCFTCARC 94
TS + +KFG KC+ CG+ V E V GK +H+ CF CA+C
Sbjct: 26 TSKFAQKFGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKC 69
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 23 KYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTK 64
K +H CF+C+ C SL K+G YC Y K FG K
Sbjct: 57 KPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 22/33 (66%)
Query: 63 TKCAQCGEYVEGEVVTALGKTYHQKCFTCARCR 95
+ C QCGE++ G V+ A+ ++H +CF C C+
Sbjct: 6 SGCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQ 38
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 27/55 (49%)
Query: 6 CTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKK 60
C C + G V++ + +H CF+C +C+ LA G+ G + C + ++
Sbjct: 8 CHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNRE 62
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of
MlpCRP3
Length = 58
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%)
Query: 23 KYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKF 61
K +H TCF+C++C SL +KDG YC Y K F
Sbjct: 20 KPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 64 KCAQCGEYV-EGEVVTALGKTYHQKCFTCARC 94
KC +CG+ V E V GK +H+ CF CA C
Sbjct: 1 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAIC 32
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 23 KYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTK 64
K +H +CF+C+ C SL +KDG YC Y K FG K
Sbjct: 29 KSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 70
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 65 CAQCGEYV-EGEVVTALGKTYHQKCFTCARC 94
C +CG+ V E V GK++H+ CF CA+C
Sbjct: 11 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKC 41
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%)
Query: 23 KYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTK 64
K +H +CF+C+ C SL +KDG YC Y K FG K
Sbjct: 136 KSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 177
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 65 CAQCGEYV-EGEVVTALGKTYHQKCFTCARC 94
C +CG+ V E V GK++H+ CF CA+C
Sbjct: 118 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKC 148
>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 = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 16 EVLRVQDKYFHITCFQCSVCKNSLAQGGY--FNKDGAYYC 53
E L V +FH +CF+C C+ +L GGY DG +YC
Sbjct: 29 ERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYC 68
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 25/56 (44%), Gaps = 9/56 (16%)
Query: 62 GTKCAQCGEYV-EGEVVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAYENRLG 116
G CA CGE++ E + G +H+ CF C C E W GG YE G
Sbjct: 15 GDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTC------EATLWPGG--YEQHPG 62
>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 = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 6 CTSCKKKCSG--EVLRVQDKYFHITCFQCSVCKNSLAQGG-YFNKDGAYYCTSD 56
C SC K+ +RV+DK +H+ CF+C+ C+ + G Y + C D
Sbjct: 11 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQD 64
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 6 CTSCKKKCSG--EVLRVQDKYFHITCFQCSVCKNSLAQGG-YFNKDGAYYCTSD 56
C SC K+ +RV+DK +H+ CF+C+ C+ + G Y + C D
Sbjct: 13 CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQD 66
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 33.9 bits (76), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 6 CTSCKKKCSGE-VLRVQDKYFHITCFQCSVCKNSLAQGGY--FNKDGAYYCTSDYQKKFG 62
C C K + +L D Y+H C +CS C+ L G + K G C +DY + FG
Sbjct: 64 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And
Glycine- Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 33.9 bits (76), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%)
Query: 16 EVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTK 64
E ++ + FH CF C VC+ +L D YC S Y KK+G K
Sbjct: 21 EEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPK 69
Score = 28.9 bits (63), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 62 GTKCAQCGEYV-EGEVVTALGKTYHQKCFTCARCR 95
G KC CG V E V G+++H+ CF C CR
Sbjct: 7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCR 41
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 25 FHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGT 63
+H CF CS CK + G +F K +YC + ++ KF +
Sbjct: 39 WHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFAS 77
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 18 LRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGT 63
L + +H CF CS C+ L + GA+YC Y+ KF +
Sbjct: 22 LEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAS 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 = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 2/62 (3%)
Query: 3 KAYCTSCKKKCSG--EVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKK 60
A C C+ + S ++ + +H CF C+ C +G ++ +G YC D+Q
Sbjct: 11 NAVCQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQML 70
Query: 61 FG 62
F
Sbjct: 71 FA 72
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 76 VVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAY 111
+V + G+ YH+ CF CA+C ++ GR Y
Sbjct: 27 IVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKY 62
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl
Terminal Lim Domain Protein 1
Length = 79
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 4 AYCTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYC 53
C C G ++++D++ H C+ C+ C +L Q G+F + YC
Sbjct: 16 PMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYC 65
>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 = 32.7 bits (73), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 6 CTSCKKKCSGE-VLRVQDKYFHITCFQCSVCKNSLAQGGY--FNKDGAYYCTSDYQKKF 61
C C K + +L D Y+H C +CS C+ L G + K G C +DY + F
Sbjct: 8 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human
Lim- Kinase 2 (limk2)
Length = 81
Score = 32.3 bits (72), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 19/40 (47%)
Query: 56 DYQKKFGTKCAQCGEYVEGEVVTALGKTYHQKCFTCARCR 95
DY KFG C C + G + A YH +CF C C+
Sbjct: 9 DYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCK 48
>pdb|1WIG|A Chain A, Solution Structure Of Rsgi Ruh-019, A Lim Domain Of
Actin Binding Lim Protein 2 (kiaa1808 Protein) From
Human Cdna
Length = 73
Score = 32.3 bits (72), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 6 CTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQG 42
C SC+K +G VL +K++H +C C C A+G
Sbjct: 8 CDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEG 44
Score = 32.0 bits (71), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 65 CAQCGEYVEGEVVTALGKTYHQKCFTCARC--RFSKKREIY 103
C C +Y+ G V+ A K YH C C RC F++ E+Y
Sbjct: 8 CDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMY 48
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 32.3 bits (72), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 6/69 (8%)
Query: 1 MIKAYCTSCKKKCSG------EVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCT 54
M A ++ ++C G +++ + +H CF C+ C +G ++ +G YC
Sbjct: 5 MANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCE 64
Query: 55 SDYQKKFGT 63
D+Q F
Sbjct: 65 HDFQMLFAP 73
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 76 VVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAY 111
+V + G+ YH++CF CA+C ++ GR Y
Sbjct: 27 IVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKY 62
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 32.0 bits (71), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 6/69 (8%)
Query: 1 MIKAYCTSCKKKCSG------EVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCT 54
M A ++ ++C G +++ + +H CF C+ C +G ++ +G YC
Sbjct: 1 MANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCE 60
Query: 55 SDYQKKFGT 63
D+Q F
Sbjct: 61 HDFQMLFAP 69
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 76 VVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAY 111
+V + G+ YH++CF CA+C ++ GR Y
Sbjct: 23 IVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKY 58
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 2/61 (3%)
Query: 6 CTSCKKKC-SGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSD-YQKKFGT 63
C C K+ E + K +H C +C C +L GG+ +G YC Y FG
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 64 K 64
K
Sbjct: 63 K 63
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 63 TKCAQCGEYVE-GEVVTALGKTYHQKCFTCARC 94
KC +C + V E VT+LGK +H+ C C +C
Sbjct: 1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKC 33
>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 = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 18 LRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGT 63
L +D++FH CF+C C+ SLA + +D C Y F +
Sbjct: 32 LFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSS 77
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 57 YQKKFGTKCAQCGEYV--EGEVVTALGKTYHQKCFTCARCRFSKKREIY 103
Y F CA+C + + + + + +H+ CF C RC+ S E +
Sbjct: 10 YDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPF 58
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin
Repeat Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 22/46 (47%)
Query: 17 VLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFG 62
++ + +H CF C+ C +G ++ +G YC D+Q F
Sbjct: 27 IVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 57 YQKKFGTKCAQC-GEYVEGE-VVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAY 111
+Q C +C G + E +V + G+ YH++CF CA+C ++ GR Y
Sbjct: 6 FQGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKY 62
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 23/54 (42%)
Query: 6 CTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQK 59
C C K + + QD+ +H CF C C LA + + YYC Y+
Sbjct: 8 CVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKN 61
>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 = 0.37, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 57 YQKKFGTKCAQCGEYVEGEVVTALGKTYHQKCFTCARCR 95
Y+ KF +CA+C + + VT + +H++C C C+
Sbjct: 10 YENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQ 48
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of
Human Fhl5 Protein
Length = 76
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 6 CTSCKKKCSG----EVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYC 53
C +C K SG + + QD +H CF C C SL G+ ++ +C
Sbjct: 8 CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFC 59
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 61 FGTKCAQCGEYVE-GEVVTALGKTYHQKCFTCARC 94
+KC +C + V E V++LGK +H+ C C RC
Sbjct: 8 MASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERC 42
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 16 EVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSD-YQKKFGT 63
E + K +H C +C C +L GG+ DG +C Y FG+
Sbjct: 23 EKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGS 71
>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 = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 14 SGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGTKCAQCGEYVE 73
S E + +++ +H+ F C C + LA Y + C Y K C C ++
Sbjct: 15 SNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAID 74
Query: 74 GEV--VTALGKTYH--QKCFTCARC 94
EV VT ++H +CF C+ C
Sbjct: 75 PEVQRVTYNNFSWHASTECFLCSCC 99
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 6 CTSCKKKCSGEVLRVQDK--YFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKKFGT 63
C CKK +++ K +H TCF C C+ + + KD +C Y+K+ +
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHAS 67
>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 = 0.85, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 73 EGEVVTALGKTYHQKCFTCARCRFSKKREIYNWLGGRAY 111
+G V AL + +H CF C+ CR + + + + RAY
Sbjct: 18 DGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAY 56
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 22 DKYFHITCFQCSVCKNSLAQGGYFNKDGAYYC 53
D+ FH+ CF CS C+ L ++ + YC
Sbjct: 26 DRVFHVGCFVCSTCRAQLRGQHFYAVERRAYC 57
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of
MlpCRP3
Length = 60
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 4 AYCTSCKKKC-SGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKK 60
A C +C+K E ++ + FH TCF C C+ +L + YC Y ++
Sbjct: 2 AKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCYGRR 59
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 62 GTKCAQCGEYV-EGEVVTALGKTYHQKCFTCARCR 95
G KC C + V E + G+++H+ CF C CR
Sbjct: 1 GAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACR 35
>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 = 1.6, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 24/48 (50%)
Query: 6 CTSCKKKCSGEVLRVQDKYFHITCFQCSVCKNSLAQGGYFNKDGAYYC 53
C CKK + + +++ +H CF C+ C+ L+ + +D YC
Sbjct: 8 CVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYC 55
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 65 CAQCGEYVEGEVVTALGKTYHQKCFTCARCR 95
C QC + + VT + +H++CF C CR
Sbjct: 8 CVQCKKPITTGGVTYREQPWHKECFVCTACR 38
>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human
Four And A Half Lim Domains 1
Length = 77
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 57 YQKKFGTKCAQCGEYVEG-----EVVTALGKTYHQKCFTCARC--RFSKKREIYN 104
Y+ KCA C + G VV G+++H CF C +C + KR +++
Sbjct: 10 YKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFH 64
>pdb|1S72|1 Chain 1, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|1 Chain 1, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|1 Chain 1, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|1 Chain 1, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|1 Chain 1, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|1 Chain 1, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|1 Chain 1, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|1 Chain 1, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|1 Chain 1, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|1 Chain 1, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|1 Chain 1, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|1 Chain 1, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|1 Chain 1, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|1 Chain 1, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|1 Chain 1, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|1 Chain 1, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|1 Chain 1, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|1 Chain 1, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|1 Chain 1, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|1 Chain 1, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|1 Chain 1, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|1 Chain 1, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|1 Chain 1, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|1 Chain 1, The Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution With Rrna Sequence For The 23s Rrna And
Genome-Derived Sequences For R-Proteins
pdb|3CC4|1 Chain 1, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|1 Chain 1, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|1 Chain 1, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|Z Chain Z, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|1 Chain 1, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|1 Chain 1, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|1 Chain 1, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|1 Chain 1, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|1 Chain 1, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|1 Chain 1, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 57
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 21/45 (46%), Gaps = 13/45 (28%)
Query: 63 TKCAQCGEYVEGEVVTALGKTYHQKCFTCARCRFSK--KREIYNW 105
TKC +CGE K+YH K C+ C F K KR Y W
Sbjct: 18 TKCRRCGE-----------KSYHTKKKVCSSCGFGKSAKRRDYEW 51
>pdb|1FFK|X Chain X, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|Z Chain Z, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|Z Chain Z, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|2 Chain 2, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|2 Chain 2, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|2 Chain 2, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|2 Chain 2, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|2 Chain 2, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|2 Chain 2, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|2 Chain 2, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|2 Chain 2, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|2 Chain 2, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|2 Chain 2, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|2 Chain 2, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|2 Chain 2, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|2 Chain 2, Crystal Structure Of Cca-Phe-Cap-Biotin Bound
Simultaneously At Half Occupancy To Both The A-Site And
P- Site Of The The 50s Ribosomal Subunit.
pdb|1QVF|Z Chain Z, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|Z Chain Z, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|Z Chain Z, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|Z Chain Z, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3G4S|1 Chain 1, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|1 Chain 1, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|1 Chain 1, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|Z Chain Z, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 56
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 21/45 (46%), Gaps = 13/45 (28%)
Query: 63 TKCAQCGEYVEGEVVTALGKTYHQKCFTCARCRFSK--KREIYNW 105
TKC +CGE K+YH K C+ C F K KR Y W
Sbjct: 17 TKCRRCGE-----------KSYHTKKKVCSSCGFGKSAKRRDYEW 50
>pdb|3CAO|A Chain A, Oxidised Structure Of The Acidic Cytochrome C3 From
Desulfovibrio Africanus
pdb|3CAR|A Chain A, Reduced Structure Of The Acidic Cytochrome C3 From
Desulfovibrio Africanus
Length = 103
Score = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 55 SDYQKKFGTKCAQCGEYVEGEVVTALGKTYHQKCFTC 91
++ + GT C+ C + L YHQ+C+ C
Sbjct: 49 AEDEDSVGTPCSDCHALEQDGDTPGLQDAYHQQCWGC 85
>pdb|2A3L|A Chain A, X-Ray Structure Of Adenosine 5'-Monophosphate Deaminase
From Arabidopsis Thaliana In Complex With Coformycin
5'-Phosphate
Length = 701
Score = 25.4 bits (54), Expect = 8.2, Method: Composition-based stats.
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 29 CFQCSVCKNSLAQGGYFNKDGAYYCTSDYQKK 60
C C + +NS+ Q G+ + +++ DY K+
Sbjct: 626 CDLCEIARNSVYQSGFSHALKSHWIGKDYYKR 657
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
0.325 0.138 0.463
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,025,892
Number of Sequences: 62578
Number of extensions: 159367
Number of successful extensions: 576
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 51
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 458
Number of HSP's gapped (non-prelim): 111
length of query: 120
length of database: 14,973,337
effective HSP length: 82
effective length of query: 38
effective length of database: 9,841,941
effective search space: 373993758
effective search space used: 373993758
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)