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= psy327
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 53/120 (44%), Gaps = 17/120 (14%)
Query: 9 GPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDEVRVQVGGHR 68
N WH F C C+ +L IY DK C KP C + V G H
Sbjct: 21 AENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVC--------KP-CYVKNHAVVCQGCHN 71
Query: 69 TRDLNINYFSSLPAGQMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFCSIACSK 128
D + ++++ WHA+ CF C+ CS L+G+ F+P G++FCS+ C K
Sbjct: 72 AIDPEVQ--------RVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKK 123
>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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 30/45 (66%)
Query: 84 QMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFCSIACSK 128
++++ WHA+ CF C+ CS L+G+ F+P G++FCS+ C K
Sbjct: 18 RVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKK 62
>pdb|1X4L|A Chain A, Solution Structure Of Lim Domain In Four And A Half Lim
Domains Protein 2
Length = 72
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 27/56 (48%), Gaps = 10/56 (17%)
Query: 85 MSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFCSIACSKGEPPTPSDSSGP 140
+S E + WH + CF C CSLSL+GR FL I C P D SGP
Sbjct: 24 ISFEERQWH--NDCFNCKKCSLSLVGRGFLTERDDILC--------PDCGKDISGP 69
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 35.0 bits (79), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 79 SLPAGQMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFCSIACSKGEPPTPS 135
++ +G ++++ Q WHA CF C TCS L G+ F +C + C K PS
Sbjct: 14 AITSGGITYQDQPWHA--DCFVCVTCSKKLAGQRFTAVEDQYYC-VDCYKNFVSGPS 67
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 14 WHPGCFTCSVCNELLVDLIYFYRGDKLYC 42
WH CF C C++ L + D+ YC
Sbjct: 27 WHADCFVCVTCSKKLAGQRFTAVEDQYYC 55
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 34.7 bits (78), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 11 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYC 42
N+ WHP CF C +C E+L D+ + + C
Sbjct: 24 NNSWHPECFRCDLCQEVLADIGFVKNAGRHLC 55
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 34.7 bits (78), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 27/50 (54%), Gaps = 6/50 (12%)
Query: 91 HWHATDSCFCCATCSLSLLGRPFLPRAGVIFCSIACSKGEPPTPSDSSGP 140
WH+ CF C CS+SL+G+ FL + IFC C G +D SGP
Sbjct: 30 QWHS--ECFNCGKCSVSLVGKGFLTQNKEIFCQ-KCGSG---MDTDISGP 73
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 11 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGR 44
+S WH CF C C+ LV + + +++C +
Sbjct: 28 DSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQK 61
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 34.7 bits (78), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 14 WHPGCFTCSVCNELLVDLIYFYRGDKLYC 42
WH CFTCS C +++ +F +G+ YC
Sbjct: 39 WHKDCFTCSNCKQVIGTGSFFPKGEDFYC 67
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 77 FSSLPAG--QMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
F ++ AG + ++G WH CF C+ C + F P+ +C
Sbjct: 22 FKAIVAGDQNVEYKGTVWHK--DCFTCSNCKQVIGTGSFFPKGEDFYC 67
>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 = 33.9 bits (76), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 26/54 (48%), Gaps = 14/54 (25%)
Query: 91 HWHATDSCFCCATCSLSLLGRPFLPRAGVIFCS-----------IACSKGEPPT 133
HWH+ SC CA C + L R F RAG ++C AC +G PPT
Sbjct: 28 HWHS--SCLKCADCQMQLADRCF-SRAGSVYCKEDFFKRFGTKCTACQQGIPPT 78
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 33/95 (34%), Gaps = 20/95 (21%)
Query: 14 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDEVRVQVGGHRTRDLN 73
WH C C+ C L D F R +YC + +C+AC +
Sbjct: 29 WHSSCLKCADCQMQLADRC-FSRAGSVYCKEDFFKRFGTKCTACQQ-------------- 73
Query: 74 INYFSSLPAGQMSHEGQHWHATDSCFCCATCSLSL 108
+P Q+ + Q + CF C C+ L
Sbjct: 74 -----GIPPTQVVRKAQDFVYHLHCFACIICNRQL 103
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 3/47 (6%)
Query: 7 RAGPNSCWHPGCFTCSVCNELLV--DLIYFYRGDKLYCGRHHAETLK 51
R + +H CF C +CN L D Y +L C + ET K
Sbjct: 82 RKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDY-ETAK 127
>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human
Four And A Half Lim Domains 1
Length = 77
Score = 33.5 bits (75), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 85 MSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
+++EGQ WH D CF C CS++L + F+ ++C
Sbjct: 35 VAYEGQSWH--DYCFHCKKCSVNLANKRFVFHQEQVYC 70
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 14 WHPGCFTCSVCNELLVDLIYFYRGDKLYC 42
WH CF C C+ L + + + +++YC
Sbjct: 42 WHDYCFHCKKCSVNLANKRFVFHQEQVYC 70
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 33.5 bits (75), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 36/95 (37%), Gaps = 20/95 (21%)
Query: 14 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDEVRVQVGGHRTRDLN 73
WH C CS C+ L + F RG+ +YC + +C+AC Q+G
Sbjct: 83 WHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAAC-----QLG-------- 128
Query: 74 INYFSSLPAGQMSHEGQHWHATDSCFCCATCSLSL 108
+P Q+ Q + CF C C L
Sbjct: 129 ------IPPTQVVRRAQDFVYHLHCFACVVCKRQL 157
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 33.1 bits (74), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 6/70 (8%)
Query: 11 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDEVRVQVGGHRTR 70
N WH CF C+ C L + + + +K+ C + P+C C + V G
Sbjct: 26 NRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGC--FKAIVAG---- 79
Query: 71 DLNINYFSSL 80
D N+ Y ++
Sbjct: 80 DQNVEYKGTV 89
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 84 QMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFCSIACSKGEPP 132
++ ++ + WH D+CF CA C L F+ + I C+ ++ + P
Sbjct: 21 EVHYKNRFWH--DTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSP 67
>pdb|2RGT|A Chain A, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
pdb|2RGT|B Chain B, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
Length = 169
Score = 33.1 bits (74), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 36/95 (37%), Gaps = 20/95 (21%)
Query: 14 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDEVRVQVGGHRTRDLN 73
WH C CS C+ L + F RG+ +YC + +C+AC Q+G
Sbjct: 29 WHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAAC-----QLG-------- 74
Query: 74 INYFSSLPAGQMSHEGQHWHATDSCFCCATCSLSL 108
+P Q+ Q + CF C C L
Sbjct: 75 ------IPPTQVVRRAQDFVYHLHCFACVVCKRQL 103
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 47/141 (33%), Gaps = 32/141 (22%)
Query: 12 SCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDEVRVQVGGHRTRD 71
S +H CF C VC + L GD++YC + + P+ + +
Sbjct: 28 SSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGES 87
Query: 72 LNINYFSSLP-------AGQMSHE-----------------------GQHWHATDSCFCC 101
L I Y A +M+ + G+ WH SCF C
Sbjct: 88 LGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWH--KSCFRC 145
Query: 102 ATCSLSLLGRPFLPRAGVIFC 122
A C SL + G I+C
Sbjct: 146 AKCGKSLESTTLADKDGEIYC 166
Score = 29.6 bits (65), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 1 MSVFASRA--GPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPR 53
+V+A+ G WH CF C+ C + L + ++YC +A+ P+
Sbjct: 123 QAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 177
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 15 HPGCFTCSVCNELLVDLIYFYRGDKLYCGRH 45
HP CF C+ CN L YF+ +LYC H
Sbjct: 48 HPECFVCADCNLNLKQKGYFFVEGELYCETH 78
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 84 QMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
++ + GQ WH + CF C+ C L R F+P G +C
Sbjct: 21 KLEYGGQTWH--EHCFLCSGCEQPLGSRSFVPDKGAHYC 57
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl
Terminal Lim Domain Protein 1
Length = 79
Score = 30.8 bits (68), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 15 HPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETL 50
HP C+ C+ C L +F+ D++YC +H E +
Sbjct: 38 HPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERV 73
>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 = 30.4 bits (67), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 2 SVFASRA--GPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPR 53
SV+A+ G WH CF C+ C + L + ++YC +A+ P+
Sbjct: 45 SVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 78 SSLPAGQMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
S A ++ G+ WH +CF CA C SL + G I+C
Sbjct: 45 SVYAAEKVIGAGKPWH--KNCFRCAKCGKSLESTTLTEKEGEIYC 87
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 30.4 bits (67), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 2 SVFASRA--GPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPR 53
SV+A+ G WH CF C+ C + L + ++YC +A+ P+
Sbjct: 45 SVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
Score = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 89 GQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
G+ WH +CF CA C SL + G I+C
Sbjct: 56 GKPWH--KNCFRCAKCGKSLESTTLTEKEGEIYC 87
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 30.4 bits (67), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 84 QMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
+M ++G WH T CF C C + + F+P+ FC
Sbjct: 21 KMEYKGSSWHET--CFICHRCQQPIGTKSFIPKDNQNFC 57
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 30.0 bits (66), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 1 MSVFASRA--GPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPR 53
+V+A+ G WH CF C+ C + L + ++YC +A+ P+
Sbjct: 16 QAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 70
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 89 GQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
G+ WH SCF CA C SL + G I+C
Sbjct: 28 GKSWH--KSCFRCAKCGKSLESTTLADKDGEIYC 59
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim
Protein 3
Length = 80
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 90 QHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
+ WH SCF C TCS+ L G ++ + GV +C
Sbjct: 36 KQWHV--SCFKCQTCSVILTGE-YISKDGVPYC 65
>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 = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 45/119 (37%), Gaps = 28/119 (23%)
Query: 11 NSCWHPGCFTCSVCNELLVDL--IYFYRGDKLYCGRHHAETL--KPRCSACDEVRVQVGG 66
+S WH C CS C L D+ + + + C + CSAC +
Sbjct: 23 DSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQ------- 75
Query: 67 HRTRDLNINYFSSLPAGQ--MSHEGQHWHATDSCFCCATCSLSLL-GRPFLPRAGVIFC 122
S+PA + M +G +H CF C+TC L+ G F G +FC
Sbjct: 76 ------------SIPASELVMRAQGNVYHL--KCFTCSTCRNRLVPGDRFHYINGSLFC 120
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 45/119 (37%), Gaps = 28/119 (23%)
Query: 11 NSCWHPGCFTCSVCNELLVDL--IYFYRGDKLYCGRHHAETL--KPRCSACDEVRVQVGG 66
+S WH C CS C L D+ + + + C + CSAC +
Sbjct: 25 DSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQ------- 77
Query: 67 HRTRDLNINYFSSLPAGQ--MSHEGQHWHATDSCFCCATCSLSLL-GRPFLPRAGVIFC 122
S+PA + M +G +H CF C+TC L+ G F G +FC
Sbjct: 78 ------------SIPASELVMRAQGNVYHL--KCFTCSTCRNRLVPGDRFHYINGSLFC 122
>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 = 2.3, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 18/40 (45%)
Query: 14 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPR 53
+H CF CS CN L Y ++YC H + K +
Sbjct: 38 FHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK 77
>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 = 2.9, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 80 LPAGQMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFC 122
+ G +++ Q WH CF C C L G+ F R +C
Sbjct: 15 ITTGGVTYREQPWH--KECFVCTACRKQLSGQRFTARDDFAYC 55
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 14 WHPGCFTCSVCNELLVDLIYFYRGDKLYC 42
WH CF C+ C + L + R D YC
Sbjct: 27 WHKECFVCTACRKQLSGQRFTARDDFAYC 55
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3
Length = 58
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 78 SSLPAGQMSHEGQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFCSIACSK 128
S A ++ G+ WH T CF CA C SL + G ++C + +K
Sbjct: 8 SVYAAEKVMGGGKPWHKT--CFRCAICGKSLESTNVTDKDGELYCKVCYAK 56
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 2 SVFASRA--GPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETL 50
SV+A+ G WH CF C++C + L + +LYC +A+
Sbjct: 8 SVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 14 WHPGCFTCSVCNELL 28
+HPGCFTC VC+ L
Sbjct: 37 YHPGCFTCVVCHRGL 51
>pdb|1X6A|A Chain A, Solution Structures Of The Second Lim Domain Of Human
Lim- Kinase 2 (limk2)
Length = 81
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 14 WHPGCFTCSVCNELLV--DLIYFYRGDKLYCGRHHAETL 50
+HP CF C C ++ D + LYCG+ H E +
Sbjct: 37 YHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV 75
>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 = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 89 GQHWHATDSCFCCATCSLSLLGRPFLPRAGVIFCS 123
G+ WH F CA C LG R G+ +C
Sbjct: 24 GKQWHVEH--FVCAKCEKPFLGHRHYERKGLAYCE 56
>pdb|4F3Z|A Chain A, Crystal Structure Of A Swine H1n2 Influenza Virus
Hemagglutinin
pdb|4F3Z|C Chain C, Crystal Structure Of A Swine H1n2 Influenza Virus
Hemagglutinin
pdb|4F3Z|E Chain E, Crystal Structure Of A Swine H1n2 Influenza Virus
Hemagglutinin
Length = 329
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 9/50 (18%)
Query: 42 CGRHHAETLKPRCSACDEVRVQVGGHRTRDLNINYFSSL--PAGQMSHEG 89
C +++ KP +AC +VR Q G INY+ +L P +++ E
Sbjct: 204 CSSRYSKKFKPEIAACPKVRDQAG-------RINYYWTLVEPGDKITFEA 246
>pdb|2JBL|C Chain C, Photosynthetic Reaction Center From Blastochloris Viridis
pdb|3T6E|C Chain C, Crystal Structure Of The Reaction Centre From
Blastochloris Viridis Strain Dsm 133 (Atcc 19567)
Substrain-94
Length = 356
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 65 GGHRTRDLNINYF----SSLPAGQMSHEGQ 90
G RDLN+NY +SLPA ++ +G+
Sbjct: 290 GIRMVRDLNMNYLAPLNASLPASRLGRQGE 319
>pdb|1PRC|C Chain C, Crystallographic Refinement At 2.3 Angstroms Resolution
And Refined Model Of The Photosynthetic Reaction Center
From Rhodopseudomonas Viridis
pdb|2PRC|C Chain C, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Ubiquinone-2 Complex)
pdb|3PRC|C Chain C, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Qb- Depleted)
pdb|5PRC|C Chain C, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Atrazine Complex)
pdb|6PRC|C Chain C, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Dg- 420314 (Triazine) Complex)
pdb|7PRC|C Chain C, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Dg- 420315 (Triazine) Complex)
pdb|1DXR|C Chain C, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis - His L168 Phe Mutant (Terbutryn Complex)
pdb|1R2C|C Chain C, Photosynthetic Reaction Center Blastochloris Viridis
(Atcc)
pdb|2I5N|C Chain C, 1.96 A X-Ray Structure Of Photosynthetic Reaction Center
From Rhodopseudomonas Viridis:crystals Grown By
Microfluidic Technique
pdb|3D38|C Chain C, Crystal Structure Of New Trigonal Form Of Photosynthetic
Reaction Center From Blastochloris Viridis. Crystals
Grown In Microfluidics By Detergent Capture.
pdb|2WJM|C Chain C, Lipidic Sponge Phase Crystal Structure Of The
Photosynthetic Reaction Centre From Blastochloris
Viridis (Low Dose)
pdb|2WJN|C Chain C, Lipidic Sponge Phase Crystal Structure Of Photosynthetic
Reaction Centre From Blastochloris Viridis (High Dose)
pdb|3G7F|C Chain C, Crystal Structure Of Blastochloris Viridis Heterodimer
Mutant Reaction Center
pdb|2X5U|C Chain C, 80 Microsecond Laue Diffraction Snapshot From Crystals Of
A Photosynthetic Reaction Centre Without Illumination.
pdb|2X5V|C Chain C, 80 Microsecond Laue Diffraction Snapshot From Crystals Of
A Photosynthetic Reaction Centre 3 Millisecond Following
Photoactivation
pdb|4AC5|C Chain C, Lipidic Sponge Phase Crystal Structure Of The Bl. Viridis
Reaction Centre Solved Using Serial Femtosecond
Crystallography
Length = 336
Score = 26.6 bits (57), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 65 GGHRTRDLNINYF----SSLPAGQMSHEGQ 90
G RDLN+NY +SLPA ++ +G+
Sbjct: 270 GIRMVRDLNMNYLAPLNASLPASRLGRQGE 299
>pdb|1VRN|C Chain C, Photosynthetic Reaction Center Blastochloris Viridis
(Atcc)
Length = 332
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 65 GGHRTRDLNINYF----SSLPAGQMSHEGQ 90
G RDLN+NY +SLPA ++ +G+
Sbjct: 270 GIRMVRDLNMNYLAPLNASLPASRLGRQGE 299
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
0.322 0.136 0.459
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,642,964
Number of Sequences: 62578
Number of extensions: 229298
Number of successful extensions: 384
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 324
Number of HSP's gapped (non-prelim): 72
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
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: 48 (23.1 bits)