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= psy3656
(185 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 33/57 (57%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFS 141
C +C +PI G+V+ A+GK WH EHF+C C + +ER YCE Y+ LF
Sbjct: 8 CGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG 64
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 21/36 (58%)
Query: 142 PRCSYCNGPILDKCVTALEKTWHTEHFFCAQCGKQF 177
P C C PI + V A+ K WH EHF CA+C K F
Sbjct: 6 PICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPF 41
>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin
Length = 80
Score = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 33/54 (61%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHN 138
C C++P++ ++A+ WHPE F+C C T +FFE D RP+CE YH+
Sbjct: 18 CGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHH 71
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 26/43 (60%)
Query: 135 DYHNLFSPRCSYCNGPILDKCVTALEKTWHTEHFFCAQCGKQF 177
D+ +FSP+C CN P+L+ ++A++ WH E F C C F
Sbjct: 9 DFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSF 51
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz
And Lim Domains Protein
Length = 90
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 30/57 (52%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFS 141
C+ C++ I G + ALGK+WHPE F C HC + F E YCE Y F+
Sbjct: 28 CAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFA 84
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 20/33 (60%)
Query: 141 SPRCSYCNGPILDKCVTALEKTWHTEHFFCAQC 173
+P C++CN I + AL K+WH E F CA C
Sbjct: 25 TPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHC 57
>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex
Length = 182
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 4/97 (4%)
Query: 85 CSSCDKPIVGQ-VITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
C+ CD+ I+ + ++ AL + WH + C+ C+ L R F R YC+ D+ F +
Sbjct: 63 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTK 121
Query: 144 CSYCNGPILDKCVT--ALEKTWHTEHFFCAQCGKQFG 178
C+ C I V A + +H F C C +Q
Sbjct: 122 CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLA 158
>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim
Protein 3
Length = 80
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 85 CSSCDKPIV-GQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLF 140
C+ C + I GQ + AL K WH F C C+ L T + +D PYCE DYH F
Sbjct: 18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL-TGEYISKDGVPYCESDYHAQF 73
>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 = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 4/97 (4%)
Query: 85 CSSCDKPIVGQ-VITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
C+ CD+ I+ + ++ AL + WH + C+ C+ L R F R YC+ D+ F +
Sbjct: 9 CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTK 67
Query: 144 CSYCNGPILDKCVT--ALEKTWHTEHFFCAQCGKQFG 178
C+ C I V A + +H F C C +Q
Sbjct: 68 CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLA 104
>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2
Associated Lim Protein
Length = 89
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 25/49 (51%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCE 133
C C IVG V+ A K HPE F+C CN L + +F + YCE
Sbjct: 28 CDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCE 76
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 142 PRCSYCNGPILDKCVTALEKTWHTEHFFCAQC 173
P C C I+ V A +K H E F CA C
Sbjct: 26 PLCDKCGSGIVGAVVKARDKYRHPECFVCADC 57
>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 = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFS 141
C C KPI +T + WH E F+CT C ++L + F RD YC + +L++
Sbjct: 8 CVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYA 64
Score = 30.8 bits (68), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 17/37 (45%)
Query: 141 SPRCSYCNGPILDKCVTALEKTWHTEHFFCAQCGKQF 177
S C C PI VT E+ WH E F C C KQ
Sbjct: 5 SSGCVQCKKPITTGGVTYREQPWHKECFVCTACRKQL 41
>pdb|2D8X|A Chain A, Solution Structure Of The Second Lim Domain Of
Particularly Interesting New Cys-His Protein (Pinch)
Length = 70
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 26/50 (52%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEP 134
C C + I+G+VI A+ +WHPE F C C + L F + R C P
Sbjct: 8 CHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRP 57
>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human
Thyroid Receptor-Interacting Protein 6
Length = 81
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 39/66 (59%), Gaps = 3/66 (4%)
Query: 77 VTTTQKGCCSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNF-FERDSRPYCEPD 135
V T +K C++C +PI+ +++ A+GK +HP F C C++ L F + S+ +C D
Sbjct: 12 VATLEK--CATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIED 69
Query: 136 YHNLFS 141
+H F+
Sbjct: 70 FHRKFA 75
Score = 30.0 bits (66), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 143 RCSYCNGPILDKCVTALEKTWHTEHFFCAQCGK 175
+C+ C+ PILD+ + A+ K +H F C C +
Sbjct: 17 KCATCSQPILDRILRAMGKAYHPGCFTCVVCHR 49
>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 = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 44/96 (45%), Gaps = 5/96 (5%)
Query: 85 CSSCDKPIVGQVIT-ALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
C+ CD+ I T A + WH +HF C C+ L + + +P C+P Y +
Sbjct: 6 CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVV 65
Query: 144 CSYCNGPILDKC--VTALEKTWH--TEHFFCAQCGK 175
C C+ I + VT +WH TE F C+ C K
Sbjct: 66 CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSK 101
>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 = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 42/97 (43%), Gaps = 4/97 (4%)
Query: 85 CSSCDKPIVGQ-VITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
C+ C++ I+ + ++ L + WH C C +L R F R YC+ D+ F +
Sbjct: 9 CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRCF-SRAGSVYCKEDFFKRFGTK 67
Query: 144 CSYCNGPILDKCVT--ALEKTWHTEHFFCAQCGKQFG 178
C+ C I V A + +H F C C +Q
Sbjct: 68 CTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLA 104
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 142 PRCSYCNGPILDKCV-TALEKTWHTEHFFCAQCGKQFGE 179
P+C+ CN ILDK + L++ WH+ CA C Q +
Sbjct: 7 PQCAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLAD 45
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 85 CSSCDK--PIVGQVITALGKTWHPEHFICTHCNQELGTRN--FFERDSRPYCEPDY 136
C++C + P V A +H F C CN++L T + + D R C+ DY
Sbjct: 68 CTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDY 123
>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex
Length = 70
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%)
Query: 95 QVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSP 142
+++ + G+ +H + F+C C Q+ F+E + R YCE D+ LF+P
Sbjct: 22 KIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP 69
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 139 LFSPRCSYCNGPIL--DKCVTALEKTWHTEHFFCAQCGKQFGEAMV 182
L S C C G +K V + + +H + F CAQC +QF E +
Sbjct: 5 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLF 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 = 16/48 (33%), Positives = 29/48 (60%)
Query: 95 QVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSP 142
+++ + G+ +H + F+C C Q+ F+E + R YCE D+ LF+P
Sbjct: 26 KIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP 73
Score = 26.9 bits (58), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 139 LFSPRCSYCNGPIL--DKCVTALEKTWHTEHFFCAQCGKQFGEAMV 182
L S C C G +K V + + +H + F CAQC +QF E +
Sbjct: 9 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLF 54
>pdb|1V6G|A Chain A, Solution Structure Of The Lim Domain Of The Human Actin
Binding Lim Protein 2
Length = 81
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/31 (54%), Positives = 24/31 (77%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCN 115
C SCD+ I G+V++ALGKT+HP+ F+C C
Sbjct: 18 CFSCDQFIEGEVVSALGKTYHPDCFVCAVCR 48
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 23/39 (58%)
Query: 135 DYHNLFSPRCSYCNGPILDKCVTALEKTWHTEHFFCAQC 173
DY L+ RC C+ I + V+AL KT+H + F CA C
Sbjct: 9 DYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVC 47
>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human
Skeletal Muscle Lim-Protein 2
Length = 80
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFS 141
C+ C K + +T + WH E +CT C L + F RD PYC + LF+
Sbjct: 18 CARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFA 74
Score = 35.8 bits (81), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 134 PDYHNLFSPRCSYCNGPILDKCVTALEKTWHTEHFFCAQC-----GKQF 177
P Y N F+PRC+ C+ + VT ++ WH E C C G+QF
Sbjct: 8 PCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQF 56
>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures
Length = 76
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 2/61 (3%)
Query: 85 CSSCDKPI-VGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCE-PDYHNLFSP 142
C CDK + + +T+LGK WH C C + L + E + +PYC P Y +F P
Sbjct: 3 CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 143 R 143
+
Sbjct: 63 K 63
>pdb|2XJY|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21
Crystal Form
pdb|2XJZ|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|B Chain B, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|C Chain C, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|D Chain D, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
pdb|2XJZ|E Chain E, Crystal Structure Of The Lmo2:ldb1-Lid Complex, C2 Crystal
Form
Length = 131
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 43/100 (43%), Gaps = 7/100 (7%)
Query: 85 CSSCDKPIVGQ-VITALGKTWHPEHFICTHCNQELGT--RNFFERDSRPYCEPDYHNLFS 141
C C + I + + A+ + WH + C C LG R + + R C DY LF
Sbjct: 5 CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG 64
Query: 142 PR--CSYCNGPI--LDKCVTALEKTWHTEHFFCAQCGKQF 177
C+ C+ I + + +K +H E F CA C K F
Sbjct: 65 QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHF 104
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 81 QKGCCSSCDKPIVGQVIT--ALGKTWHPEHFICTHCNQE--LGTRNFFERDSRPYCEPDY 136
Q G C+SCDK I +T K +H E F C C + +G R + +S CE D
Sbjct: 65 QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDR-YLLINSDIVCEQDI 123
Query: 137 H 137
+
Sbjct: 124 Y 124
>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal
Muscle Lim-Protein 2
Length = 72
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%)
Query: 101 GKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFS 141
G+TWH F+C+ C Q LG+R+F YC P Y N F+
Sbjct: 26 GQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA 66
>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3
Length = 72
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 85 CSSCDKPIV--GQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDY 136
C C K I+ + + G +WH FIC C Q +GT++F +D++ +C P Y
Sbjct: 8 CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCY 61
>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat
Domain In Complex With Pinch1 Lim1 Domain
Length = 72
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 95 QVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFS 141
+++ + G+ +H + F+C C Q+ F+E + R YCE D+ LF+
Sbjct: 26 KIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 141 SPRCSYCNGPIL--DKCVTALEKTWHTEHFFCAQCGKQFGEAMV 182
S C C G +K V + + +H + F CAQC +QF E +
Sbjct: 11 SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLF 54
>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1
Length = 69
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFS 141
C C+K I IT + WH + F+C C+++L + F + + YC Y N S
Sbjct: 8 CVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVS 64
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 17/37 (45%)
Query: 141 SPRCSYCNGPILDKCVTALEKTWHTEHFFCAQCGKQF 177
S C CN I +T ++ WH + F C C K+
Sbjct: 5 SSGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKL 41
>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The
Cysteine Rich Protein Crp
Length = 85
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 85 CSSCDKPI-VGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
C C + + + + GK+WH F C C + L + ++D YC+ Y F P+
Sbjct: 11 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 70
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 156 VTALEKTWHTEHFFCAQCGKQF 177
V K+WH F CA+CGK
Sbjct: 24 VIGAGKSWHKSCFRCAKCGKSL 45
>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal
Muscle Lim Protein 1
Length = 82
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 85 CSSCDKPIVG--QVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYC 132
C C K IV Q + G WH + F C++C Q +GT +FF + YC
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYC 67
>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
Nmr, Minimized Structure
Length = 113
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 85 CSSC-DKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
CS+C D + + GK WH F C C + L + E++ YC+ Y F P+
Sbjct: 39 CSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
Score = 26.6 bits (57), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 143 RCSYCNGPILD-KCVTALEKTWHTEHFFCAQCGKQF 177
+CS C + + V K WH F CA+CGK
Sbjct: 38 KCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL 73
>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1
Length = 192
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 85 CSSCDKPI-VGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
C C + + + + GK+WH F C C + L + ++D YC+ Y F P+
Sbjct: 118 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 177
Score = 26.6 bits (57), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 156 VTALEKTWHTEHFFCAQCGKQF 177
V K+WH F CA+CGK
Sbjct: 131 VIGAGKSWHKSCFRCAKCGKSL 152
>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human
Cysteine-Rich Protein 2
Length = 76
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 85 CSSCDKPI-VGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYC-EPDYHNLF 140
C CDK + + +++LGK WH C C++ L E D +P+C +P Y LF
Sbjct: 12 CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 85 CSSC-DKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
CS C D + + GK WH F C C + L + E++ YC+ Y F P+
Sbjct: 39 CSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 143 RCSYCNGPILD-KCVTALEKTWHTEHFFCAQCGKQF 177
+CS C + + V K WH F CA+CGK
Sbjct: 38 KCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL 73
>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 = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 95 QVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFS 141
+++ + G+ +H F+C C + F+E + R YCE D+ LF+
Sbjct: 26 RIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLFA 72
>pdb|1X62|A Chain A, Solution Structure Of The Lim Domain Of Carboxyl Terminal
Lim Domain Protein 1
Length = 79
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCE 133
C C IVG + + HPE ++CT C L + F + + YCE
Sbjct: 18 CDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCE 66
>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid
Receptor Interacting Protein 6 (Trip6)
Length = 72
Score = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 94 GQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDY 136
G + AL + +H F+C+ C +L ++F+ + R YCE Y
Sbjct: 19 GAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCY 61
>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein
Lost In Neoplasm
Length = 91
Score = 35.0 bits (79), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 85 CSSCDKPIV-GQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
C C K + + + A + +H F C++CN +L + R YC+P ++ LF +
Sbjct: 18 CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK 77
Query: 144 CSYCNG 149
+Y G
Sbjct: 78 GNYDEG 83
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 34.3 bits (77), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 7/96 (7%)
Query: 85 CSSCDKPIVGQ-VITALGKTWHPEHFICTHCNQELGT--RNFFERDSRPYCEPDYHNLF- 140
C+ C I + ++ A+ WH C+ C +LG + + + C DY LF
Sbjct: 8 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 67
Query: 141 -SPRCSYCNG--PILDKCVTALEKTWHTEHFFCAQC 173
S CS C P + + A +H + F C+ C
Sbjct: 68 NSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTC 103
Score = 31.2 bits (69), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 143 RCSYCNGPILDK-CVTALEKTWHTEHFFCAQCGKQFGE 179
RC+ C G I D+ + A++ WH+ C+ C Q G+
Sbjct: 7 RCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGD 44
>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 = 34.3 bits (77), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 7/96 (7%)
Query: 85 CSSCDKPIVGQ-VITALGKTWHPEHFICTHCNQELGT--RNFFERDSRPYCEPDYHNLF- 140
C+ C I + ++ A+ WH C+ C +LG + + + C DY LF
Sbjct: 6 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 65
Query: 141 -SPRCSYCNG--PILDKCVTALEKTWHTEHFFCAQC 173
S CS C P + + A +H + F C+ C
Sbjct: 66 NSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTC 101
Score = 31.2 bits (69), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 143 RCSYCNGPILDK-CVTALEKTWHTEHFFCAQCGKQFGE 179
RC+ C G I D+ + A++ WH+ C+ C Q G+
Sbjct: 5 RCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGD 42
>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1
Length = 101
Score = 34.3 bits (77), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 34/88 (38%), Gaps = 4/88 (4%)
Query: 85 CSSCDKPIVG--QVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSP 142
C C KPI + + + WH F C C L F +D++ C SP
Sbjct: 8 CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSP 67
Query: 143 RCSYCNGPIL--DKCVTALEKTWHTEHF 168
+C C I+ D+ V WH + F
Sbjct: 68 KCKGCFKAIVAGDQNVEYKGTVWHKDCF 95
>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human
Four And A Half Lim Domains 1
Length = 77
Score = 33.9 bits (76), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 6/56 (10%)
Query: 85 CSSCDKPIVG-----QVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPD 135
C+ C PI G V+ G++WH F C C+ L + F + YC PD
Sbjct: 18 CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYC-PD 72
>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 = 0.14, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQ 116
C SC+K I G+V+ A K +HP +C C Q
Sbjct: 8 CDSCEKYITGRVLEAGEKHYHPSCALCVRCGQ 39
Score = 26.9 bits (58), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 19/42 (45%)
Query: 144 CSYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEAMVKFI 185
C C I + + A EK +H C +CG+ F E ++
Sbjct: 8 CDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYL 49
>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human
Fhl5 Protein
Length = 76
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 85 CSSCDKPIVG----QVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCE 133
C +C KPI G + I WH E F C C+ L + F ++ +C+
Sbjct: 8 CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQ 60
>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 = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 138 NLFSPRCSYCNGPILDK-CVTALEKTWHTEHFFCAQCGKQFGE 179
+L RC+ C G I D+ + A++ WH+ C+ C Q G+
Sbjct: 2 SLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGD 44
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 3/59 (5%)
Query: 85 CSSCDKPIVGQ-VITALGKTWHPEHFICTHCNQELGT--RNFFERDSRPYCEPDYHNLF 140
C+ C I + ++ A+ WH C+ C +LG + + + C DY LF
Sbjct: 8 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66
>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1
(18-82)
Length = 123
Score = 31.6 bits (70), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 142 PRCSYCNGPILDK-CVTALEKTWHTEHFFCAQCGKQFGE 179
RC+ C G I D+ + A++ WH+ C+ C Q G+
Sbjct: 62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGD 100
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 3/59 (5%)
Query: 85 CSSCDKPIVGQ-VITALGKTWHPEHFICTHCNQELGT--RNFFERDSRPYCEPDYHNLF 140
C+ C I + ++ A+ WH C+ C +LG + + + C DY LF
Sbjct: 64 CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 122
>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3
Length = 58
Score = 31.2 bits (69), Expect = 0.33, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 85 CSSCDKPI-VGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLF 140
C C K + + + GK WH F C C + L + N ++D YC+ Y F
Sbjct: 2 CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58
>pdb|2COR|A Chain A, Solution Structure Of The Third Lim Domain Of Particularly
Interesting New Cys-His Protein
Length = 79
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 85 CSSCDKPIVGQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEP 134
C C I Q + +HP+HF C +C +EL T + E YC P
Sbjct: 18 CQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKEL-TADARELKGELYCLP 66
Score = 26.9 bits (58), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 144 CSYCNGPILDKCVTALEKTWHTEHFFCAQCGKQF 177
C C+ I ++ + +H +HF CA CGK+
Sbjct: 18 CQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKEL 51
>pdb|3H4N|A Chain A, Ppcd, A Cytochrome C7 From Geobacter Sulfurreducens
pdb|3H4N|B Chain B, Ppcd, A Cytochrome C7 From Geobacter Sulfurreducens
Length = 72
Score = 30.8 bits (68), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 82 KGCCSSCDKPIVGQVITALGKTWHPEHFICTHCNQELG 119
KG C +C + G I +GK W H CT C++E+G
Sbjct: 25 KGECKACHETEAGGKIAGMGKDW--AHKTCTGCHKEMG 60
>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 = 30.4 bits (67), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 81 QKGCCSSCDKPIVGQVIT--ALGKTWHPEHFICTHCNQELGTRN-FFERDSRPYCEPDYH 137
Q G C+SCDK I +T K +H E F C C + + + +S CE D +
Sbjct: 7 QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDIY 66
>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Lmo2(Lim2)- Ldb1(Lid)
Length = 125
Score = 30.0 bits (66), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 81 QKGCCSSCDKPIVGQVIT--ALGKTWHPEHFICTHCNQ--ELGTRNFFERDSRPYCEPDY 136
Q G C+SCDK I +T K +H E F C C + +G R + +S CE D
Sbjct: 9 QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDR-YLLINSDIVCEQDI 67
Query: 137 H 137
+
Sbjct: 68 Y 68
>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine-
Rich Protein, Nmr, Minimized Average Structure
Length = 81
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 85 CSSCDKPIV-GQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDYHNLFSPR 143
C +C + + + + G+++H F+C C + L + D+ YC+ Y + P+
Sbjct: 10 CGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPK 69
>pdb|2HVQ|A Chain A, Structure Of Adenylated Full-length T4 Rna Ligase 2
Length = 335
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 21/47 (44%)
Query: 58 GKQLDCMLDSLTAEMSRQGVTTTQKGCCSSCDKPIVGQVITALGKTW 104
GK + + + E SR+G+T TQ S K +V V L W
Sbjct: 284 GKVMGLTVQDILEETSREGITLTQADNPSLIKKELVKMVQDVLRPAW 330
>pdb|2HVR|A Chain A, Structure Of T4 Rna Ligase 2 With Nicked 5'-Adenylated
Nucleic Acid Duplex Containing A 3'-Deoxyribonucleotide
At The Nick
pdb|2HVR|B Chain B, Structure Of T4 Rna Ligase 2 With Nicked 5'-Adenylated
Nucleic Acid Duplex Containing A 3'-Deoxyribonucleotide
At The Nick
pdb|2HVS|A Chain A, Structure Of T4 Rna Ligase 2 With Nicked 5'-Adenylated
Nucleic Acid Duplex Containing A 2'-Deoxyribonucleotide
At The Nick
pdb|2HVS|B Chain B, Structure Of T4 Rna Ligase 2 With Nicked 5'-Adenylated
Nucleic Acid Duplex Containing A 2'-Deoxyribonucleotide
At The Nick
Length = 335
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 21/47 (44%)
Query: 58 GKQLDCMLDSLTAEMSRQGVTTTQKGCCSSCDKPIVGQVITALGKTW 104
GK + + + E SR+G+T TQ S K +V V L W
Sbjct: 284 GKVMGLTVQDILEETSREGITLTQADNPSLIKKELVKMVQDVLRPAW 330
>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3
Length = 60
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 85 CSSCDKPIV-GQVITALGKTWHPEHFICTHCNQELGTRNFFERDSRPYCEPDY 136
C +C+K + + I G+++H F C C + L + +S YC+ Y
Sbjct: 4 CGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCY 56
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.136 0.454
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,645,335
Number of Sequences: 62578
Number of extensions: 218561
Number of successful extensions: 431
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 346
Number of HSP's gapped (non-prelim): 95
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
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)