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= psy3653
(202 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 39/85 (45%), Positives = 51/85 (60%), Gaps = 18/85 (21%)
Query: 60 DYFDLFAPKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQP 119
D+ +F+PKCGGCNR ++ENY+SA++T WH CFVC DC
Sbjct: 9 DFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCG------------------DCFTS 50
Query: 120 FQGGSFFDHEGLPYCETHYHAKRGS 144
F GSFF+ +G P+CE HYH +RGS
Sbjct: 51 FSTGSFFELDGRPFCELHYHHRRGS 75
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 29/48 (60%)
Query: 146 CAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYC 193
C GC++P+ ++AM +HPE FVC C + G+F E + +P+C
Sbjct: 18 CGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFC 65
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 18 FQKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDY 61
+ ++A++ WH E F C C F F E DG+P+C Y
Sbjct: 26 LENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHY 69
>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 = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 52/104 (50%), Gaps = 5/104 (4%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPKCGGCNRAIMENYV 81
+ L++ WH+ CA C Q + F + G YC++D+F F KC C + I V
Sbjct: 22 LKVLDRHWHSSCLKCADCQMQLADRCF-SRAGSVYCKEDFFKRFGTKCTACQQGIPPTQV 80
Query: 82 --SALNTQWHSTCFVCRDCKKPV-TGKSFYAME-GKPDCRQPFQ 121
A + +H CF C C + + TG FY ME G+ C++ ++
Sbjct: 81 VRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124
Score = 50.1 bits (118), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 49/119 (41%), Gaps = 22/119 (18%)
Query: 67 PKCGGCNRAIMENYV-SALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQGGSF 125
P+C GCN+ I++ ++ L+ WHS+C C DC+ + +
Sbjct: 7 PQCAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRC------------------- 47
Query: 126 FDHEGLPYCETHYHAKRGSLCAGCHKPITGRCITAMFRKF--HPEHFVCAFCLRQLNKG 182
F G YC+ + + G+ C C + I + + F H F C C RQL G
Sbjct: 48 FSRAGSVYCKEDFFKRFGTKCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATG 106
>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 = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 45/93 (48%), Gaps = 4/93 (4%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPKCGGCNRAIMENYV 81
+ AL++ WH++ C+ C E F + YC+DD+F F KC C I V
Sbjct: 22 LKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGTKCAACQLGIPPTQV 80
Query: 82 --SALNTQWHSTCFVCRDCKKPV-TGKSFYAME 111
A + +H CF C CK+ + TG FY ME
Sbjct: 81 VRRAQDFVYHLHCFACVVCKRQLATGDEFYLME 113
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 48/119 (40%), Gaps = 22/119 (18%)
Query: 67 PKCGGCNRAIMENYV-SALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQGGSF 125
P C GC++ I++ ++ AL+ WHS C C DC P+ + F E
Sbjct: 7 PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV------------ 54
Query: 126 FDHEGLPYCETHYHAKRGSLCAGCHKPITGRCITAMFRKF--HPEHFVCAFCLRQLNKG 182
YC+ + + G+ CA C I + + F H F C C RQL G
Sbjct: 55 -------YCKDDFFKRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATG 106
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 45/93 (48%), Gaps = 4/93 (4%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPKCGGCNRAIMENYV 81
+ AL++ WH++ C+ C E F + YC+DD+F F KC C I V
Sbjct: 76 LKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGTKCAACQLGIPPTQV 134
Query: 82 --SALNTQWHSTCFVCRDCKKPV-TGKSFYAME 111
A + +H CF C CK+ + TG FY ME
Sbjct: 135 VRRAQDFVYHLHCFACVVCKRQLATGDEFYLME 167
Score = 50.1 bits (118), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 48/119 (40%), Gaps = 22/119 (18%)
Query: 67 PKCGGCNRAIMENYV-SALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQGGSF 125
P C GC++ I++ ++ AL+ WHS C C DC P+ + F E
Sbjct: 61 PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGES------------- 107
Query: 126 FDHEGLPYCETHYHAKRGSLCAGCHKPITGRCITAMFRKF--HPEHFVCAFCLRQLNKG 182
YC+ + + G+ CA C I + + F H F C C RQL G
Sbjct: 108 ------VYCKDDFFKRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATG 160
>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 = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 37/83 (44%), Gaps = 18/83 (21%)
Query: 63 DLFAPKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQG 122
+ P CG C R I V+A+ QWH FVC C+K PF G
Sbjct: 2 SMGVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEK------------------PFLG 43
Query: 123 GSFFDHEGLPYCETHYHAKRGSL 145
++ +GL YCETHY+ G +
Sbjct: 44 HRHYERKGLAYCETHYNQLFGDV 66
Score = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 32/58 (55%)
Query: 145 LCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLFG 202
+C C +PI GR + AM +++H EHFVCA C + E+ YC + +LFG
Sbjct: 7 ICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG 64
Score = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 25/47 (53%)
Query: 20 KCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFA 66
+ V A+ K WH EHF CA+C K F +E+ G YC Y LF
Sbjct: 18 RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG 64
>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 = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 44/93 (47%), Gaps = 4/93 (4%)
Query: 24 ALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPKCGGCNRAIMENY--V 81
A + WH +HF C C + + + KP C+ Y A C GC+ AI V
Sbjct: 21 AENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRV 80
Query: 82 SALNTQWHST--CFVCRDCKKPVTGKSFYAMEG 112
+ N WH++ CF+C C K + G+ F +EG
Sbjct: 81 TYNNFSWHASTECFLCSCCSKCLIGQKFMPVEG 113
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 48/132 (36%), Gaps = 23/132 (17%)
Query: 67 PKCGGCNRAIMEN-YVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQGGSF 125
P+C GC+ I N Y A N WH F C DC + G+ + + KP C+
Sbjct: 4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKP------- 56
Query: 126 FDHEGLPYCETHYHAKRGSLCAGCHKPITGRCITAMFRKF----HPEHFVCAFCLRQLNK 181
C HA +C GCH I + F E F+C+ C + L
Sbjct: 57 --------CYVKNHA---VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIG 105
Query: 182 GTFKEQNDKPYC 193
F +C
Sbjct: 106 QKFMPVEGMVFC 117
Score = 30.0 bits (66), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 146 CAGCHKPI-TGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEK 199
CAGC + I + A + +H +HF C C L + NDKP C C+ K
Sbjct: 6 CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVK 60
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 47/100 (47%), Gaps = 7/100 (7%)
Query: 24 ALEKTWHTEHFFCAQCGKQFGEDGF--HEKDGKPYCRDDYFDLF--APKCGGCNRAI--M 77
A++ WH+ C+ C Q G+ G + K G CR+DY LF + C C ++I
Sbjct: 21 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 80
Query: 78 ENYVSALNTQWHSTCFVCRDCK-KPVTGKSFYAMEGKPDC 116
E + A +H CF C C+ + V G F+ + G C
Sbjct: 81 ELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC 120
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 48/120 (40%), Gaps = 21/120 (17%)
Query: 68 KCGGCNRAIMENYVS-ALNTQWHSTCFVCRDCKKPV--TGKSFYAMEGKPDCRQPFQGGS 124
+C GC I + ++ A+++ WHS C C C+ + G S Y G CR +
Sbjct: 5 RCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI--R 62
Query: 125 FFDHEGLPYCETHYHAKRGSLCAGCHK--PITGRCITAMFRKFHPEHFVCAFCLRQLNKG 182
F + G C+ C + P + + A +H + F C+ C +L G
Sbjct: 63 LFGNSG--------------ACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPG 108
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 47/100 (47%), Gaps = 7/100 (7%)
Query: 24 ALEKTWHTEHFFCAQCGKQFGEDGF--HEKDGKPYCRDDYFDLF--APKCGGCNRAI--M 77
A++ WH+ C+ C Q G+ G + K G CR+DY LF + C C ++I
Sbjct: 23 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 82
Query: 78 ENYVSALNTQWHSTCFVCRDCK-KPVTGKSFYAMEGKPDC 116
E + A +H CF C C+ + V G F+ + G C
Sbjct: 83 ELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC 122
Score = 35.8 bits (81), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 48/120 (40%), Gaps = 21/120 (17%)
Query: 68 KCGGCNRAIMENYVS-ALNTQWHSTCFVCRDCKKPV--TGKSFYAMEGKPDCRQPFQGGS 124
+C GC I + ++ A+++ WHS C C C+ + G S Y G CR +
Sbjct: 7 RCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI--R 64
Query: 125 FFDHEGLPYCETHYHAKRGSLCAGCHK--PITGRCITAMFRKFHPEHFVCAFCLRQLNKG 182
F + G C+ C + P + + A +H + F C+ C +L G
Sbjct: 65 LFGNSG--------------ACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPG 110
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz
And Lim Domains Protein
Length = 90
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 123 GSFFDHEGLPYCETHYHA-KRGSLCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNK 181
GS D + L H A KR +CA C++ I G + A+ + +HPE F CA C +
Sbjct: 4 GSSGDQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAY 63
Query: 182 GTFKEQNDKPYCHGCFEKLF 201
F E+ YC C+EK F
Sbjct: 64 IGFVEEKGALYCELCYEKFF 83
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 22/45 (48%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFA 66
+ AL K+WH E F CA C GF E+ G YC Y FA
Sbjct: 40 LVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFA 84
Score = 30.8 bits (68), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 21/51 (41%)
Query: 67 PKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCR 117
P C CN+ I ++ AL WH F C CK + F +G C
Sbjct: 26 PMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCE 76
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 61 YFDLFAPKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDC 116
Y + FAP+C C++ + + V+ + WH C VC C+ P+ G+ F + + P C
Sbjct: 10 YENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYC 65
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 30/64 (46%)
Query: 138 YHAKRGSLCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCF 197
Y K CA C K +T +T + +H E VC C L F +++ PYC CF
Sbjct: 10 YENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACF 69
Query: 198 EKLF 201
+LF
Sbjct: 70 GELF 73
Score = 33.5 bits (75), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 7/65 (10%)
Query: 9 FDDHFSLRCF-------QKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDY 61
+++ F+ RC Q VT ++ WH E C C F +D PYC +
Sbjct: 10 YENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACF 69
Query: 62 FDLFA 66
+LFA
Sbjct: 70 GELFA 74
>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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/106 (28%), Positives = 46/106 (43%), Gaps = 7/106 (6%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDG--FHEKDGKPYCRDDYFDLFAPK--CGGCNRAIM 77
+ A+++ WH + C CG + GE G + K G+ CR DY LF C C++ I
Sbjct: 18 LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIR 77
Query: 78 --ENYVSALNTQWHSTCFVCRDCKKP-VTGKSFYAMEGKPDCRQPF 120
E + + +H CF C C+K G + + C Q
Sbjct: 78 AYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim
Protein 3
Length = 80
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 20/77 (25%)
Query: 69 CGGCNRAIMEN-YVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQGGSFFD 127
C GC I + AL+ QWH +CF C+ C +TG+ +
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGE-------------------YIS 58
Query: 128 HEGLPYCETHYHAKRGS 144
+G+PYCE+ YHA+ GS
Sbjct: 59 KDGVPYCESDYHAQFGS 75
Score = 33.9 bits (76), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 20 KCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFA 66
+ + AL+K WH F C C + + KDG PYC DY F
Sbjct: 29 QSLLALDKQWHVSCFKCQTCSVILTGE-YISKDGVPYCESDYHAQFG 74
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 31/58 (53%)
Query: 144 SLCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLF 201
S C C KPIT +T + +H E FVC C +QL+ F ++D YC CF L+
Sbjct: 6 SGCVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 23/45 (51%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFA 66
VT E+ WH E F C C KQ F +D YC + + DL+A
Sbjct: 20 VTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYA 64
Score = 33.9 bits (76), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 69 CGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAME 111
C C + I V+ WH CFVC C+K ++G+ F A +
Sbjct: 8 CVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARD 50
>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein
Length = 77
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 31/49 (63%)
Query: 19 QKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAP 67
+K V + + +H + F CAQC +QF E F+E +G+ YC D+ LFAP
Sbjct: 25 EKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP 73
Score = 30.4 bits (67), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 21/47 (44%)
Query: 75 AIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQ 121
A E V++ +H CFVC C + FY EG+ C FQ
Sbjct: 22 APAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQ 68
Score = 30.0 bits (66), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 146 CAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLFG 202
C G P + + + +H + FVCA C +Q +G F E + YC F+ LF
Sbjct: 17 CKGGFAP-AEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 31/49 (63%)
Query: 19 QKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAP 67
+K V + + +H + F CAQC +QF E F+E +G+ YC D+ LFAP
Sbjct: 21 EKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP 69
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 21/47 (44%)
Query: 75 AIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQ 121
A E V++ +H CFVC C + FY EG+ C FQ
Sbjct: 18 APAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQ 64
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 146 CAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLFG 202
C G P + + + +H + FVCA C +Q +G F E + YC F+ LF
Sbjct: 13 CKGGFAPAE-KIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 68
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPK 68
V K+WH F CA+CGK +KDG+ YC+ Y F PK
Sbjct: 24 VIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 70
Score = 33.9 bits (76), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 23/45 (51%)
Query: 158 ITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLFG 202
+ + +H F CA C + L T +++ + YC GC+ K FG
Sbjct: 24 VIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFG 68
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 2/51 (3%)
Query: 67 PKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCR 117
P+CG V WH +CF C C K + + +G+ C+
Sbjct: 12 PRCG--QAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 60
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPK 68
V K+WH F CA+CGK +KDG+ YC+ Y F PK
Sbjct: 131 VIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 177
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 36/167 (21%), Positives = 62/167 (37%), Gaps = 32/167 (19%)
Query: 68 KCGGCNRAI-MENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQGGSFF 126
KCG C +A+ V + +H +CF+C CKK + + + C+ +
Sbjct: 9 KCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGP 68
Query: 127 -----------------DHEGLPYCETHYHAKRGSLCAGCHKPITG-----RCITAMF-- 162
+ G+ Y E H + + + G RC A++
Sbjct: 69 KGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAA 128
Query: 163 -------RKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLFG 202
+ +H F CA C + L T +++ + YC GC+ K FG
Sbjct: 129 EKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFG 175
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 18 FQKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDD-YFDLFAPKCGGCNRAI 76
F + VT+L K WH C +CGK G E +GKPYC Y +F PK G R
Sbjct: 12 FAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPK--GFGRGG 69
Query: 77 MENYV 81
E++
Sbjct: 70 AESHT 74
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 67 PKCGGCNRAI-MENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQP 119
PKC C++ + V++L WH C C C K +T EGKP C P
Sbjct: 1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHP 54
Score = 31.6 bits (70), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 158 ITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYC-HGCFEKLFG 202
+T++ + +H C C + L G E KPYC H C+ +FG
Sbjct: 16 VTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 69 CGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGK---PDCRQPFQGG 123
C CN+AI ++ + WH+ CFVC C K + G+ F A+E + DC + F G
Sbjct: 8 CVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSG 65
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 144 SLCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLF 201
S C C+K IT IT + +H + FVC C ++L F D+ YC C++
Sbjct: 6 SGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFV 63
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 22/50 (44%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPKCGG 71
+T ++ WH + F C C K+ F + + YC D Y + + G
Sbjct: 20 ITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG 69
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
Query: 29 WHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPKCGGCNRAIM--ENYVSALNT 86
WH F CA+C + F KD K C +PKC GC +AI+ + V T
Sbjct: 29 WHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQNVEYKGT 88
Query: 87 QWHSTCF 93
WH CF
Sbjct: 89 VWHKDCF 95
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 85 NTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQ 118
N WH TCF C C P+ ++F A + K C +
Sbjct: 26 NRFWHDTCFRCAKCLHPLANETFVAKDNKILCNK 59
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 2/58 (3%)
Query: 144 SLCAGCHKPITGRCITAMFRK--FHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEK 199
S C C KPI ++ +H F CA CL L TF +++K C+ C +
Sbjct: 6 SGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTR 63
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin
Repeat Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 30/48 (62%)
Query: 19 QKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFA 66
+K V + + +H + F CAQC +QF E F+E +G+ YC D+ LFA
Sbjct: 25 EKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 5/66 (7%)
Query: 142 RGSLCAGCHKPITG-----RCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGC 196
+GS A C + G + + + +H + FVCA C +Q +G F E + YC
Sbjct: 7 QGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHD 66
Query: 197 FEKLFG 202
F+ LF
Sbjct: 67 FQMLFA 72
Score = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 21/47 (44%)
Query: 75 AIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQ 121
A E V++ +H CFVC C + FY EG+ C FQ
Sbjct: 22 APAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQ 68
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 23/47 (48%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPK 68
V K WH F CA+CGK EK+G+ YC+ Y F PK
Sbjct: 52 VIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 158 ITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLFG 202
+ + +H F CA C + L T E+ + YC GC+ K FG
Sbjct: 52 VIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFG 96
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 1/53 (1%)
Query: 66 APKCGGCNRAI-MENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCR 117
A KC C ++ V WH CF C C K + + EG+ C+
Sbjct: 36 AEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 88
>pdb|1IBI|A Chain A, Quail Cysteine And Glycine-Rich Protein, Nmr, 15
Minimized Model Structures
pdb|1QLI|A Chain A, Quail Cysteine And Glycine-Rich Protein, Nmr, Minimized
Average Structure
Length = 113
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 23/47 (48%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFAPK 68
V K WH F CA+CGK EK+G+ YC+ Y F PK
Sbjct: 52 VIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 158 ITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLFG 202
+ + +H F CA C + L T E+ + YC GC+ K FG
Sbjct: 52 VIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFG 96
Score = 27.3 bits (59), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 1/53 (1%)
Query: 66 APKCGGCNRAI-MENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCR 117
A KC C ++ V WH CF C C K + + EG+ C+
Sbjct: 36 AEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 88
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 47 GFHEKDGKPYCRDDYFDLFAPKCGGCNRAIM--ENYVSALNTQWHSTCFVCRDCKKPVTG 104
G GK R+D +PKC GC +AI+ + V T WH CF C +CK+ +
Sbjct: 1 GSSGSSGKCTTRED-----SPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGT 55
Query: 105 KSFY 108
SF+
Sbjct: 56 GSFF 59
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 25/54 (46%)
Query: 60 DYFDLFAPKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGK 113
DY L+ +C C++ I VSAL +H CFVC C+ P GK
Sbjct: 9 DYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGK 62
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 25/53 (47%)
Query: 138 YHAKRGSLCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDK 190
Y G+ C C + I G ++A+ + +HP+ FVCA C G N K
Sbjct: 10 YQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGK 62
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 65 FAPKCGGCNRAI-MENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQP 119
A KC C++ + VS+L WH C C C K +T +GKP C +P
Sbjct: 8 MASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKP 63
Score = 33.5 bits (75), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 18 FQKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDD-YFDLFA 66
F + V++L K WH C +C K G E DGKP+C Y LF
Sbjct: 21 FAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG 70
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 158 ITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHG-CFEKLFG 202
++++ + +H C C + L G E + KP+CH C+ LFG
Sbjct: 25 VSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG 70
>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 = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 19 QKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFA 66
++ V + + +H F CAQC + F E F+E +G+ YC D+ LFA
Sbjct: 25 ERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLFA 72
Score = 33.5 bits (75), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 78 ENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQ 121
E V++ +H CFVC C +P FY EG+ C FQ
Sbjct: 25 ERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQ 68
Score = 30.4 bits (67), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 137 HYHAKRGSLCAGCHKPIT--GRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCH 194
++ ++C C + R + + +H FVCA C R +G F E + YC
Sbjct: 5 YFQGSANAVCQRCQARFSPAERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCE 64
Query: 195 GCFEKLFG 202
F+ LF
Sbjct: 65 HDFQMLFA 72
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 34.7 bits (78), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 24 ALEKTWHTEHFFCAQCGKQFGEDGF--HEKDGKPYCRDDYFDLFA 66
A++ WH+ C+ C Q G+ G + K G CR+DY LF
Sbjct: 79 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123
Score = 33.5 bits (75), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 68 KCGGCNRAIMENYVS-ALNTQWHSTCFVCRDCKKPV--TGKSFYAMEGKPDCRQPF 120
+C GC I + ++ A+++ WHS C C C+ + G S Y G CR +
Sbjct: 63 RCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 118
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 34.3 bits (77), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 81 VSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDC 116
V AL+ +H CFVC C+ + G+ FYA+E + C
Sbjct: 22 VVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYC 57
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 21/43 (48%)
Query: 155 GRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCF 197
G + A+ R FH FVC+ C QL F + YC GC+
Sbjct: 19 GAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCY 61
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 34.3 bits (77), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 146 CAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTF 184
CA C +PI R + AM + +HP F C C R L+ F
Sbjct: 18 CATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPF 56
Score = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 68 KCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSF 107
KC C++ I++ + A+ +H CF C C + + G F
Sbjct: 17 KCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPF 56
>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 = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 24 ALEKTWHTEHFFCAQCGKQFGEDGF--HEKDGKPYCRDDYFDLF 65
A++ WH+ C+ C Q G+ G + K G CR+DY LF
Sbjct: 23 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66
Score = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 64 LFAPKCGGCNRAIMENYVS-ALNTQWHSTCFVCRDCKKPV--TGKSFYAMEGKPDCRQPF 120
L +C GC I + ++ A+++ WHS C C C+ + G S Y G CR +
Sbjct: 3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 62
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 33.9 bits (76), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 69 CGGCNRAIMENY--VSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGK 113
C C + IM + + WH TCF+C C++P+ KSF + +
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQ 54
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 33.9 bits (76), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 32/82 (39%), Gaps = 18/82 (21%)
Query: 67 PKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQPFQGGSFF 126
P C C I+ V A + H CFVC DC + K ++ +EG+
Sbjct: 26 PLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGE------------- 72
Query: 127 DHEGLPYCETHYHAKRGSLCAG 148
YCETH A+ +G
Sbjct: 73 -----LYCETHARARTSGPSSG 89
Score = 30.4 bits (67), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 140 AKRGSLCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNK 181
A+R LC C I G + A + HPE FVCA C L +
Sbjct: 22 AQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQ 63
>pdb|1X4L|A Chain A, Solution Structure Of Lim Domain In Four And A Half Lim
Domains Protein 2
Length = 72
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 80 YVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGK---PDCRQPFQGGS 124
Y+S QWH+ CF C+ C + G+ F PDC + G S
Sbjct: 23 YISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPS 70
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of
MlpCRP3
Length = 58
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 19/39 (48%)
Query: 27 KTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLF 65
K WH F CA CGK +KDG+ YC+ Y F
Sbjct: 20 KPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%)
Query: 72 CNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCR 117
C I+ + A+N WH CF C C++ + F G+ CR
Sbjct: 11 CGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCR 56
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 24/56 (42%)
Query: 144 SLCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEK 199
S C C + I GR I AM +HPE F C C L F + + C C +
Sbjct: 6 SGCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNR 61
Score = 30.0 bits (66), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 18 FQKCVTALEKTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCR 58
+ + A+ +WH E F C C + + GF + G+ CR
Sbjct: 16 IGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCR 56
>pdb|2COR|A Chain A, Solution Structure Of The Third Lim Domain Of Particularly
Interesting New Cys-His Protein
Length = 79
Score = 31.6 bits (70), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 145 LCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKL 200
+C CH I + + +HP+HF CA C ++L +E + YC C +K+
Sbjct: 17 ICQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKELT-ADARELKGELYCLPCHDKM 71
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 29 WHTEHFFCAQCGKQFGEDGFHEKDGKPYCRD--DYFDLFAPKCG 70
+H +HF CA CGK+ D E G+ YC D + P G
Sbjct: 37 YHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGPSSG 79
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human Lim-
Kinase 2 (limk2)
Length = 81
Score = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 24/51 (47%)
Query: 60 DYFDLFAPKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAM 110
DY+ F C GC+ + ++ A ++H CF C CK + YA+
Sbjct: 9 DYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYAL 59
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 2/66 (3%)
Query: 138 YHAKRGSLCAGCHKPITGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKE--QNDKPYCHG 195
Y K G C GC +TG + A K+HPE F C C + G Q+ YC
Sbjct: 10 YWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGK 69
Query: 196 CFEKLF 201
C ++
Sbjct: 70 CHNEVV 75
>pdb|1J2O|A Chain A, Structure Of Flin2, A Complex Containing The N-Terminal
Lim Domain Of Lmo2 And Ldb1-Lid
Length = 114
Score = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 22 VTALEKTWHTEHFFCAQCGKQFGEDG--FHEKDGKPYCRDDYFDL 64
+ A+++ WH + C CG + GE G + K G+ CR DY L
Sbjct: 19 LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63
>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 = 0.43, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 28/70 (40%), Gaps = 8/70 (11%)
Query: 59 DDYFDLFAPKCGGCNRAIM-----ENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGK 113
D Y + A KC GC I + V+ WH CF C+ C + K F + +
Sbjct: 8 DCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQ 67
Query: 114 ---PDCRQPF 120
PDC +
Sbjct: 68 VYCPDCAKKL 77
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 8/72 (11%)
Query: 134 CETHYHAKRGSLCAGCHKPITG-----RCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQN 188
C ++ AK+ CAGC PITG + + +H F C C L F
Sbjct: 9 CYKNFVAKK---CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQ 65
Query: 189 DKPYCHGCFEKL 200
++ YC C +KL
Sbjct: 66 EQVYCPDCAKKL 77
>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 = 30.8 bits (68), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 66 APKCGGCNRAIMENY--VSALNTQWHST--CFVCRDCKKPVTGKSFYAMEGKPDC 116
A C GC+ AI V+ N WH++ CF+C C K + G+ F +EG C
Sbjct: 2 AVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 56
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 85 NTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQ 118
++QWHS CF C C + GK F + C++
Sbjct: 28 DSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQK 61
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 144 SLCAGCHKPITG----RCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEK 199
S C C KPI+G + I ++H E F C C L F QN + +C C
Sbjct: 6 SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSG 65
Query: 200 L 200
+
Sbjct: 66 M 66
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine-
Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%)
Query: 163 RKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGCFEKLFG 202
R FH F+C C + L+ T + + YC C+ K +G
Sbjct: 28 RSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG 67
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl Terminal
Lim Domain Protein 1
Length = 79
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 23/52 (44%)
Query: 67 PKCGGCNRAIMENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCRQ 118
P C C I+ +V + H C+VC DC + K + +E + C +
Sbjct: 16 PMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEK 67
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 88 WHSTCFVCRDCKKPVTGKSFYAMEG 112
WH CF+C C++P+ +SF +G
Sbjct: 29 WHEHCFLCSGCEQPLGSRSFVPDKG 53
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 18/40 (45%)
Query: 27 KTWHTEHFFCAQCGKQFGEDGFHEKDGKPYCRDDYFDLFA 66
+TWH F C+ C + G F G YC Y + FA
Sbjct: 27 QTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA 66
>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 = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 146 CAGCHKPITGRCITAMFRKFHPEHFVCAFCLR 177
C C K ITGR + A + +HP CA C+R
Sbjct: 8 CDSCEKYITGRVLEAGEKHYHPS---CALCVR 36
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein
Lost In Neoplasm
Length = 91
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 138 YHAKRGSLCAGCHKPI-TGRCITAMFRKFHPEHFVCAFCLRQLNKGTFKEQNDKPYCHGC 196
+ A C C K + + A + FH F C++C +L+ GT+ + + YC
Sbjct: 10 FQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPH 69
Query: 197 FEKLF 201
F +LF
Sbjct: 70 FNQLF 74
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3
Length = 60
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 67 PKCGGCNRAIM-ENYVSALNTQWHSTCFVCRDCKKPVTGKSFYAMEGKPDCR 117
KCG C + + + +H TCF C C+K + + A E + C+
Sbjct: 2 AKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53
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
0.330 0.144 0.521
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,244,584
Number of Sequences: 62578
Number of extensions: 315385
Number of successful extensions: 806
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 46
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 622
Number of HSP's gapped (non-prelim): 151
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 49 (23.5 bits)