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= 017657
(368 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 53/124 (42%), Gaps = 12/124 (9%)
Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
+CAGC+ I L LD WH +C C CH P+ + FS E+ Y K + + +
Sbjct: 62 MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGES-VYCKDDFFKRFGT 120
Query: 175 KCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDG 234
KC C+ IP + RA F +C + C C+R + ++D
Sbjct: 121 KCAACQLGIPPTQ---VVRRAQDFVYHLHCFA--------CVVCKRQLATGDEFYLMEDS 169
Query: 235 RKLC 238
R +C
Sbjct: 170 RLVC 173
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 53/124 (42%), Gaps = 12/124 (9%)
Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
+CAGC+ I L LD WH +C C CH P+ + FS E+ Y K + + +
Sbjct: 8 MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGT 66
Query: 175 KCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDG 234
KC C+ IP + RA F +C + C C+R + ++D
Sbjct: 67 KCAACQLGIPPTQ---VVRRAQDFVYHLHCFA--------CVVCKRQLATGDEFYLMEDS 115
Query: 235 RKLC 238
R +C
Sbjct: 116 RLVC 119
>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 = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 36/130 (27%), Positives = 52/130 (40%), Gaps = 12/130 (9%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
CAGCN I L LD WH C C C + D FS + Y K + + + K
Sbjct: 9 CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRCFSRA-GSVYCKEDFFKRFGTK 67
Query: 176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGR 235
C C+ IP + +A F +C + C C R + ++DGR
Sbjct: 68 CTACQQGIPPTQ---VVRKAQDFVYHLHCFA--------CIICNRQLATGDEFYLMEDGR 116
Query: 236 KLCLECLDSA 245
+C E ++A
Sbjct: 117 LVCKEDYETA 126
>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 = 1e-04, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
CAGC EI HG+ L LD WH CF C C +T E+ + + PY +S Y +
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQF 73
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
C GCN + +L+ +D WHPECF C C + F + RP+ + HYH
Sbjct: 18 CGGCNRPVLEN-YLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCEL----HYH 70
>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 = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 23/45 (51%)
Query: 113 YRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFST 157
++ CAGC +I L +D +WH C C +C + DI S+
Sbjct: 5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSS 49
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%)
Query: 113 YRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFST 157
++ CAGC +I L +D +WH C C +C + DI S+
Sbjct: 61 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSS 105
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 6/79 (7%)
Query: 113 YRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
++ CAGC +I L +D +WH C C +C + DI ++S + C ++
Sbjct: 3 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIG-TSSYTKSGMILCRNDYI 61
Query: 173 H-----PKCDVCKHFIPSN 186
C C IP++
Sbjct: 62 RLFGNSGACSACGQSIPAS 80
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 6/79 (7%)
Query: 113 YRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
++ CAGC +I L +D +WH C C +C + DI ++S + C ++
Sbjct: 5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIG-TSSYTKSGMILCRNDYI 63
Query: 173 H-----PKCDVCKHFIPSN 186
C C IP++
Sbjct: 64 RLFGNSGACSACGQSIPAS 82
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 38.1 bits (87), Expect = 0.007, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 1/65 (1%)
Query: 116 CAGCNNEIG-HGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
C C IG + ++ + FWH CF C C P+ + F +N+ C P
Sbjct: 8 CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSP 67
Query: 175 KCDVC 179
KC C
Sbjct: 68 KCKGC 72
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine-
Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 37.4 bits (85), Expect = 0.012, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
C C + H + C +H CF C C + + + + Y KSCY + Y PK
Sbjct: 10 CGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPK 69
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 126 GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
GR + ++ WHPECF C C + + DI F + R + C+
Sbjct: 17 GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCH 59
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz
And Lim Domains Protein
Length = 90
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 109 FPEGYR--ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKS 166
P G R +CA CN I G FL L WHPE F C C + I F + Y +
Sbjct: 19 IPAGKRTPMCAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCEL 77
Query: 167 CYREHY 172
CY + +
Sbjct: 78 CYEKFF 83
>pdb|1J2O|A Chain A, Structure Of Flin2, A Complex Containing The N-Terminal
Lim Domain Of Lmo2 And Ldb1-Lid
Length = 114
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDI 153
C GC IG FL +D +WH +C C C + ++
Sbjct: 6 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEV 43
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
CA C+ + G + D WH EC C C P+ +F++ + PY +C+ E +
Sbjct: 18 CARCSKTLTQGG-VTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 36.2 bits (82), Expect = 0.026, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYR 169
C CN I G + D WH +CF C C + + F+ E++ Y CY+
Sbjct: 8 CVKCNKAITSGG-ITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYK 60
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 35.8 bits (81), Expect = 0.041, Method: Composition-based stats.
Identities = 16/64 (25%), Positives = 26/64 (40%)
Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH 171
G C+ C + + + WH CF C C + + + E Y K CY ++
Sbjct: 35 GAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKN 94
Query: 172 YHPK 175
+ PK
Sbjct: 95 FGPK 98
>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 = 35.0 bits (79), Expect = 0.063, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 19/40 (47%)
Query: 136 WHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
WH CF C C + + + E Y K CY +++ PK
Sbjct: 59 WHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 34.7 bits (78), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 111 EGYRICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYR 169
G C C I G R + WH CF CH C QPI F +N+ + CY
Sbjct: 3 SGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYE 62
Query: 170 EHY 172
+ +
Sbjct: 63 KQH 65
>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 = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDI 153
C GC IG FL +D +WH +C C C + ++
Sbjct: 5 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEV 42
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3
Length = 60
Score = 33.9 bits (76), Expect = 0.16, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 22/53 (41%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
C C + H + C +H CF C AC + + + E+ Y K CY
Sbjct: 4 CGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCY 56
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 33.9 bits (76), Expect = 0.16, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 136 WHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
WH CF C C + + + + Y K CY +++ PK
Sbjct: 31 WHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 70
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 136 WHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
WH CF C C + + + + Y K CY +++ PK
Sbjct: 138 WHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 177
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 23/59 (38%)
Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
G + C C + + C +H CF C C + + + + Y KSCY +
Sbjct: 6 GGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGK 64
>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 = 32.7 bits (73), Expect = 0.31, Method: Composition-based stats.
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 136 WHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
WH ECF C AC + ++ F+ ++ Y +C+ + Y
Sbjct: 27 WHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 32.3 bits (72), Expect = 0.38, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 20/46 (43%)
Query: 123 IGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
+G G + LD +H CF C C + F E R Y + CY
Sbjct: 16 VGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCY 61
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYH 164
CA C+ I R L + +HP CF C CH+ + I F+ H
Sbjct: 18 CATCSQPI-LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIH 65
>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 = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 30/68 (44%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
CAGC+ I + + WH + FCC C + + ++P K CY +++
Sbjct: 6 CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVV 65
Query: 176 CDVCKHFI 183
C C + I
Sbjct: 66 CQGCHNAI 73
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 1/61 (1%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPY-HKSCYREHYHP 174
C C+ E+ + L WH C C C + +T + E +PY + CY + P
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 175 K 175
K
Sbjct: 63 K 63
>pdb|2QYV|A Chain A, Crystal Structure Of Putative Xaa-His Dipeptidase
(Yp_718209.1) From Haemophilus Somnus 129pt At 2.11 A
Resolution
pdb|2QYV|B Chain B, Crystal Structure Of Putative Xaa-His Dipeptidase
(Yp_718209.1) From Haemophilus Somnus 129pt At 2.11 A
Resolution
Length = 487
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 7/90 (7%)
Query: 58 EENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRICA 117
E ++ G +I K + V + + +Q L+ +GT H + P++ + +G + A
Sbjct: 49 ERDEVGNVLIRKPATVGXENRKPVVLQAHLDXVPQANEGTNHNFDQDPILPYIDGDWVKA 108
Query: 118 -----GCNNEIGHGRFLNCLDV--FWHPEC 140
G +N IG L L+ HPE
Sbjct: 109 KGTTLGADNGIGXASALAVLESNDIAHPEL 138
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 15/37 (40%)
Query: 136 WHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
WH CF C C QP+ F + Y CY +
Sbjct: 29 WHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF 65
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 29.6 bits (65), Expect = 2.8, Method: Composition-based stats.
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPY-HKSCY 168
C C+ + ++ L WH C C C + +T + + +P+ HK CY
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCY 65
>pdb|1ZFO|A Chain A, Amino-Terminal Lim-Domain Peptide Of Lasp-1, Nmr
Length = 31
Score = 29.6 bits (65), Expect = 2.9, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECF 141
CA C + +NCLD FWH CF
Sbjct: 6 CARCGKIVYPTEKVNCLDKFWHKACF 31
>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 = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPI 150
G IC C I GR +N + WH E F C C +P
Sbjct: 4 GVPICGACRRPI-EGRVVNAMGKQWHVEHFVCAKCEKPF 41
>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 = 3.7, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 3/55 (5%)
Query: 116 CAGCNNEIGH---GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSC 167
C C+ I +F+ D WH ECF C C + F T + + C
Sbjct: 8 CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKC 62
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human Lim-
Kinase 2 (limk2)
Length = 81
Score = 29.3 bits (64), Expect = 4.1, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITD 152
C GC+ + G F+ + +HPECF C +C I D
Sbjct: 18 CHGCS-LLMTGPFMVAGEFKYHPECFACMSCKVIIED 53
>pdb|2Y7C|B Chain B, Atomic Model Of The Ocr-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534.
pdb|2Y7C|C Chain C, Atomic Model Of The Ocr-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534.
pdb|2Y7H|B Chain B, Atomic Model Of The Dna-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534.
pdb|2Y7H|C Chain C, Atomic Model Of The Dna-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534
Length = 529
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 9/43 (20%)
Query: 22 RNYGEDPHCYAPSTSGDLPL---------EQENEDIDRAIALS 55
R YGEDPH +P T G+ +EN++ D+ +A S
Sbjct: 403 RVYGEDPHGLSPRTEGEWSFNAEETEVADSEENKNTDQHLATS 445
>pdb|2AR0|A Chain A, Crystal Structure Of Type I Restriction Enzyme Ecoki M
Protein (Ec 2.1.1.72) (M.Ecoki)
pdb|2AR0|B Chain B, Crystal Structure Of Type I Restriction Enzyme Ecoki M
Protein (Ec 2.1.1.72) (M.Ecoki)
Length = 541
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 9/43 (20%)
Query: 22 RNYGEDPHCYAPSTSGDLPL---------EQENEDIDRAIALS 55
R YGEDPH +P T G+ +EN++ D+ +A S
Sbjct: 405 RVYGEDPHGLSPRTEGEWSFNAEETEVADSEENKNTDQHLATS 447
>pdb|2HHJ|A Chain A, Human Bisphosphoglycerate Mutase Complexed With 2,3-
Bisphosphoglycerate (15 Days)
pdb|2HHJ|B Chain B, Human Bisphosphoglycerate Mutase Complexed With 2,3-
Bisphosphoglycerate (15 Days)
Length = 267
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 29/128 (22%), Positives = 52/128 (40%), Gaps = 17/128 (13%)
Query: 159 ENRPYHKSCYREHYHPKCDVCKHFIPSNHG--GLIEYRAHPFWVQKYCP----------- 205
E+ PY++ Y + + CDV +P + ++E R P+W ++ P
Sbjct: 128 ESHPYYQEIYNDRRYKVCDVPLDQLPRSESLKDVLE-RLLPYWNERIAPEVLRGKTILIS 186
Query: 206 SHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYES 265
+H + E + +D + L G + LE LD + Q +L QE ++
Sbjct: 187 AHGNSSRALLKHLEGISDEDIINITLPTGVPILLE-LDENLRAVGPHQ--FLGDQEAIQA 243
Query: 266 IHMKLEQQ 273
K+E Q
Sbjct: 244 AIKKVEDQ 251
>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human
Four And A Half Lim Domains 1
Length = 77
Score = 28.1 bits (61), Expect = 8.1, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 116 CAGCNNEI-GHGRFLNCLDV---FWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
CAGC N I G G+ + + WH CF C C + + F + + Y C ++
Sbjct: 18 CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK 76
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3
Length = 58
Score = 28.1 bits (61), Expect = 8.2, Method: Composition-based stats.
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 136 WHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
WH CF C C + + + + Y K CY +++
Sbjct: 22 WHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 28.1 bits (61), Expect = 8.4, Method: Composition-based stats.
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQP 149
C C+ I G ++ L +HP+CF C C P
Sbjct: 18 CFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLP 50
>pdb|1T8P|A Chain A, Crystal Structure Of Human Erythrocyte 2,3-
Bisphosphoglycerate Mutase
pdb|1T8P|B Chain B, Crystal Structure Of Human Erythrocyte 2,3-
Bisphosphoglycerate Mutase
pdb|2A9J|A Chain A, Human Bisphosphoglycerate Mutase Complexed With 3-
Phosphoglycerate (17 Days)
pdb|2A9J|B Chain B, Human Bisphosphoglycerate Mutase Complexed With 3-
Phosphoglycerate (17 Days)
pdb|2F90|A Chain A, Crystal Structure Of Bisphosphoglycerate Mutase In Complex
With 3-Phosphoglycerate And Alf4-
pdb|2F90|B Chain B, Crystal Structure Of Bisphosphoglycerate Mutase In Complex
With 3-Phosphoglycerate And Alf4-
pdb|2H4X|A Chain A, Human Bisphosphoglycerate Mutase Complex With 3-
Phosphoglycerate With Crystal Growth 90 Days
pdb|2H4X|B Chain B, Human Bisphosphoglycerate Mutase Complex With 3-
Phosphoglycerate With Crystal Growth 90 Days
pdb|2H4Z|A Chain A, Human Bisphosphoglycerate Mutase Complexed With 2,3-
Bisphosphoglycerate
pdb|2H4Z|B Chain B, Human Bisphosphoglycerate Mutase Complexed With 2,3-
Bisphosphoglycerate
pdb|2H52|A Chain A, Crystal Structure Of Human Bisphosphoglycerate Mutase
Complex With 3-Phosphoglycerate (18 Days)
pdb|2H52|B Chain B, Crystal Structure Of Human Bisphosphoglycerate Mutase
Complex With 3-Phosphoglycerate (18 Days)
pdb|3NFY|A Chain A, The Structure Of Human Bisphosphoglycerate Mutase To 1.94a
pdb|3NFY|B Chain B, The Structure Of Human Bisphosphoglycerate Mutase To 1.94a
Length = 267
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 29/128 (22%), Positives = 52/128 (40%), Gaps = 17/128 (13%)
Query: 159 ENRPYHKSCYREHYHPKCDVCKHFIPSNHG--GLIEYRAHPFWVQKYCP----------- 205
E+ PY++ Y + + CDV +P + ++E R P+W ++ P
Sbjct: 128 ESHPYYQEIYNDRRYKVCDVPLDQLPRSESLKDVLE-RLLPYWNERIAPEVLRGKTILIS 186
Query: 206 SHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYES 265
+H + E + +D + L G + LE LD + Q +L QE ++
Sbjct: 187 AHGNSSRALLKHLEGISDEDIINITLPTGVPILLE-LDENLRAVGPHQ--FLGDQEAIQA 243
Query: 266 IHMKLEQQ 273
K+E Q
Sbjct: 244 AIKKVEDQ 251
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 0.138 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,181,220
Number of Sequences: 62578
Number of extensions: 528003
Number of successful extensions: 1093
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1034
Number of HSP's gapped (non-prelim): 75
length of query: 368
length of database: 14,973,337
effective HSP length: 100
effective length of query: 268
effective length of database: 8,715,537
effective search space: 2335763916
effective search space used: 2335763916
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)