RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8090
(242 letters)
>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1,
LIM domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3
Length = 101
Score = 73.2 bits (180), Expect = 5e-17
Identities = 16/71 (22%), Positives = 26/71 (36%), Gaps = 4/71 (5%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
C C + V N WH CF C+ C L + + + +K+ C +
Sbjct: 8 CVECRKPIGADSKEVHYK----NRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTR 63
Query: 149 TLKPRCSACDE 159
P+C C +
Sbjct: 64 EDSPKCKGCFK 74
Score = 32.0 bits (73), Expect = 0.040
Identities = 8/36 (22%), Positives = 13/36 (36%), Gaps = 4/36 (11%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVC 124
C+ C + D +V + WH CF+
Sbjct: 69 CKGCFKAIVAGDQNVEYK----GTVWHKDCFSGPSS 100
>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM
domain protein CLP-36, contractIle protein, structural
genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 79
Score = 66.7 bits (163), Expect = 6e-15
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
+ HP C+ C+ C L +F+ D++YC +H E + S
Sbjct: 34 DRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSSG 79
>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM
domain 3, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: g.39.1.3 g.39.1.3
Length = 89
Score = 62.5 bits (152), Expect = 3e-13
Identities = 15/46 (32%), Positives = 19/46 (41%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
+ HP CF C+ CN L YF+ +LYC H S
Sbjct: 44 DKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSSG 89
>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding
protein, zinc finger; NMR {Coturnix japonica} SCOP:
g.39.1.3 g.39.1.3 PDB: 2o10_A
Length = 81
Score = 57.0 bits (138), Expect = 3e-11
Identities = 10/46 (21%), Positives = 18/46 (39%)
Query: 114 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDE 159
+H CF C VC + L ++YC + + P+ +
Sbjct: 30 FHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQ 75
>2cur_A Skeletal muscle LIM-protein 1; four and A half LIM domains protein
1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 69
Score = 53.5 bits (129), Expect = 4e-10
Identities = 11/45 (24%), Positives = 18/45 (40%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCS 155
+ WH CF C C++ L + D+ YC + + S
Sbjct: 24 DQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSS 68
>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle;
NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3
g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A
Length = 192
Score = 56.6 bits (136), Expect = 4e-10
Identities = 16/60 (26%), Positives = 23/60 (38%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDEECQTSSQDILY 170
S +H CF C VC + L GD++YC + + P+ T S D
Sbjct: 27 GSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGE 86
Score = 55.0 bits (132), Expect = 1e-09
Identities = 11/49 (22%), Positives = 20/49 (40%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDE 159
WH CF C+ C + L + ++YC +A+ P+ +
Sbjct: 135 GKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQ 183
>1x4k_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 53.6 bits (129), Expect = 4e-10
Identities = 11/68 (16%), Positives = 25/68 (36%), Gaps = 4/68 (5%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
C+ C+ + + S WH CF C C + + + + ++ +C + +
Sbjct: 8 CQECKKTIMPGTRKMEYK----GSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEK 63
Query: 149 TLKPRCSA 156
S+
Sbjct: 64 QHASGPSS 71
>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 90
Score = 53.6 bits (129), Expect = 6e-10
Identities = 10/46 (21%), Positives = 17/46 (36%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
WHP F C+ C + + + LYC + + S+
Sbjct: 44 GKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPSS 89
Score = 27.8 bits (62), Expect = 1.0
Identities = 5/30 (16%), Positives = 10/30 (33%), Gaps = 1/30 (3%)
Query: 133 YFYRGDKLYCGRH-HAETLKPRCSACDEEC 161
+ + H A P C+ C++
Sbjct: 6 SGDQDTLVQRAEHIPAGKRTPMCAHCNQVI 35
>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting
protein 1, zyxin related protein 1 (ZRP-1), structural
genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 53.2 bits (128), Expect = 6e-10
Identities = 16/69 (23%), Positives = 27/69 (39%), Gaps = 5/69 (7%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
C C +++ V A + +H GCF CS C L ++ + YC +
Sbjct: 8 CGGCGEDVVGDGAGVVAL----DRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVA 63
Query: 149 TLKPRCSAC 157
TL+ +
Sbjct: 64 TLE-SGPSS 71
>2d8z_A Four and A half LIM domains 2; skeletal muscle LIM-protein 3,
LIM-domain protein DRAL, structural genomics, NPPSFA;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 70
Score = 52.7 bits (127), Expect = 7e-10
Identities = 12/46 (26%), Positives = 17/46 (36%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
WH CF C+ C + L + R D YC + S+
Sbjct: 24 EQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPSS 69
>2ehe_A Four and A half LIM domains 3; FHL-3, skeletal muscle LIM- protein
2, SLIM 2, FHL3, SLIM2, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 82
Score = 52.9 bits (127), Expect = 9e-10
Identities = 11/43 (25%), Positives = 17/43 (39%)
Query: 114 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
+H GCF C C L D + + +L C + S+
Sbjct: 39 FHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGPSS 81
Score = 29.8 bits (67), Expect = 0.20
Identities = 7/34 (20%), Positives = 13/34 (38%)
Query: 137 GDKLYCGRHHAETLKPRCSACDEECQTSSQDILY 170
G G + T C+ C + S+++ Y
Sbjct: 1 GSSGSSGPCYDNTFANTCAECQQLIGHDSRELFY 34
>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken
structural genomics/proteomics initiative, RSGI, NPPSFA;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 72
Score = 52.4 bits (126), Expect = 1e-09
Identities = 13/68 (19%), Positives = 20/68 (29%), Gaps = 4/68 (5%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
C C + + + WH CF CS C + L + YC +
Sbjct: 8 CSACGETVMPGSRKLEYG----GQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYEN 63
Query: 149 TLKPRCSA 156
S+
Sbjct: 64 KFASGPSS 71
>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein
ISL-1; protein-protein complex, LIM domain, Zn finger,
activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A
Length = 169
Score = 54.5 bits (131), Expect = 2e-09
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDE 159
+ WH C CS C+ L + F RG+ +YC + +C+AC
Sbjct: 26 DRHWHSKCLKCSDCHVPLAE-RCFSRGESVYCKDDFFKRFGTKCAACQL 73
Score = 53.3 bits (128), Expect = 4e-09
Identities = 14/78 (17%), Positives = 24/78 (30%), Gaps = 6/78 (7%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLV--DLIYFYRGDKLYCGRHH 146
C C+ + + + A + +H CF C VC L D Y +L C +
Sbjct: 68 CAACQLGIPPTQVVRRAQ----DFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 123
Query: 147 AETLKPRCSACDEECQTS 164
+ +
Sbjct: 124 ETAKQGGSGGSGGSGGGT 141
>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM
domains protein 1, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 82
Score = 52.0 bits (125), Expect = 2e-09
Identities = 14/46 (30%), Positives = 22/46 (47%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
+ WH CFTCS C +++ +F +G+ YC H S+
Sbjct: 36 GTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPSS 81
Score = 37.7 bits (88), Expect = 3e-04
Identities = 5/23 (21%), Positives = 8/23 (34%)
Query: 137 GDKLYCGRHHAETLKPRCSACDE 159
G G+ P+C C +
Sbjct: 1 GSSGSSGKCTTREDSPKCKGCFK 23
>2d8x_A Protein pinch; LIM domain, pinch protein, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 70
Score = 51.7 bits (124), Expect = 2e-09
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETL--KPRC 154
N+ WHP CF C +C E+L D+ + + C H P
Sbjct: 24 NNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGPSS 69
>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion,
acrosom; 2.62A {Homo sapiens}
Length = 126
Score = 52.8 bits (127), Expect = 3e-09
Identities = 13/46 (28%), Positives = 17/46 (36%)
Query: 114 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDE 159
WH F C C+ +L IY DK C + + C C
Sbjct: 26 WHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHN 71
Score = 42.8 bits (101), Expect = 1e-05
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 6/62 (9%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPG--CFTCSVCNELLVDLIYFYRGDKLYCGRHH 146
C+ C + + V + N WH CF CS C++ L+ + ++C
Sbjct: 66 CQGCHNAIDPEVQRVTYN----NFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVEC 121
Query: 147 AE 148
+
Sbjct: 122 KK 123
>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 80
Score = 51.6 bits (124), Expect = 3e-09
Identities = 11/46 (23%), Positives = 18/46 (39%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
++ WHP CF C C +F + +C H+ S+
Sbjct: 34 DTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPSS 79
Score = 30.0 bits (68), Expect = 0.13
Identities = 5/23 (21%), Positives = 8/23 (34%)
Query: 137 GDKLYCGRHHAETLKPRCSACDE 159
G G+ P+C C+
Sbjct: 1 GSSGSSGKDFLAMFSPKCGGCNR 23
>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3;
intramolecular (fusion) protein-protein complex, protein
binding/transcription complex; NMR {Mus musculus}
Length = 182
Score = 53.4 bits (128), Expect = 4e-09
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 110 PNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACDE 159
+ WH C CS C+ L + F RG+ +YC + +C+AC
Sbjct: 79 LDRHWHSKCLKCSDCHVPLAE-RCFSRGESVYCKDDFFKRFGTKCAACQL 127
Score = 44.5 bits (105), Expect = 5e-06
Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 6/60 (10%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLV--DLIYFYRGDKLYCGRHH 146
C C+ + + + RA + +H CF C VC L D Y +L C +
Sbjct: 122 CAACQLGIPPTQVVR---RAQ-DFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 177
>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 49.8 bits (119), Expect = 9e-09
Identities = 14/66 (21%), Positives = 22/66 (33%), Gaps = 2/66 (3%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
C C + + + + S WH CF C C+ LV + D + C +
Sbjct: 8 CAGCTNPISGLGGTKYISFEE--RQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKD 65
Query: 149 TLKPRC 154
P
Sbjct: 66 ISGPSS 71
>1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 81
Score = 50.2 bits (120), Expect = 1e-08
Identities = 17/70 (24%), Positives = 24/70 (34%), Gaps = 8/70 (11%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLV--DLIYFYRGDKLYCGRHH 146
C C + M +HP CF C C ++ D + LYCG+ H
Sbjct: 18 CHGCSLLMTGPFMVAG------EFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCH 71
Query: 147 AETLKPRCSA 156
E + S
Sbjct: 72 NEVVSGPSSG 81
Score = 30.1 bits (68), Expect = 0.12
Identities = 4/23 (17%), Positives = 6/23 (26%)
Query: 137 GDKLYCGRHHAETLKPRCSACDE 159
G G+ + C C
Sbjct: 1 GSSGSSGKDYWGKFGEFCHGCSL 23
>2dlo_A Thyroid receptor-interacting protein 6; LIM domain, OPA-interacting
protein 1, zyxin related protein 1 (ZRP-1), structural
genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 81
Score = 49.7 bits (119), Expect = 1e-08
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFY-RGDKLYCGRHHAETLKPRCSA 156
+HPGCFTC VC+ L + + +++C S+
Sbjct: 34 GKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPSS 80
>2cuq_A Four and A half LIM domains 3; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 80
Score = 49.3 bits (118), Expect = 2e-08
Identities = 11/43 (25%), Positives = 15/43 (34%)
Query: 114 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
WH C C+ C L + R + YC E S+
Sbjct: 37 WHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPSS 79
Score = 38.9 bits (91), Expect = 1e-04
Identities = 6/23 (26%), Positives = 9/23 (39%)
Query: 137 GDKLYCGRHHAETLKPRCSACDE 159
G G + PRC+ C +
Sbjct: 1 GSSGSSGPCYENKFAPRCARCSK 23
>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding
protein 1; B-tandem zipper, protein binding; 1.30A {Mus
musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB:
2dfy_X 2xjz_I 2xjy_B
Length = 188
Score = 51.2 bits (122), Expect = 3e-08
Identities = 18/74 (24%), Positives = 25/74 (33%), Gaps = 5/74 (6%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFY-RGDKLYCGRHHA 147
C C + S++ RA + +H CFTCS C LV F+ L+C
Sbjct: 72 CSACGQSIPASEL---VMRAQ-GNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRP 127
Query: 148 ETLKPRCSACDEEC 161
L
Sbjct: 128 TALINGHLNSGGSG 141
Score = 47.7 bits (113), Expect = 5e-07
Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 4/55 (7%)
Query: 111 NSCWHPGCFTCSVCNELLVDLI--YFYRGDKLYCGRHHAET--LKPRCSACDEEC 161
+S WH C CS C L D+ + + + C + CSAC +
Sbjct: 25 DSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSI 79
>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 91
Score = 48.7 bits (116), Expect = 4e-08
Identities = 13/45 (28%), Positives = 20/45 (44%)
Query: 114 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSACD 158
+H CF CS CN L Y ++YC H + K + + +
Sbjct: 38 FHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDE 82
>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 80
Score = 48.2 bits (115), Expect = 5e-08
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
+ WH CF C C+ +L Y + YC + S+
Sbjct: 35 DKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS 79
>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo
sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 77
Score = 47.4 bits (113), Expect = 9e-08
Identities = 12/64 (18%), Positives = 25/64 (39%), Gaps = 4/64 (6%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
CE C+ ++ V ++ +H CF C+ C + + +++ + YC
Sbjct: 14 CERCKGGFAPAEKIVNSN----GELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQM 69
Query: 149 TLKP 152
P
Sbjct: 70 LFAP 73
>1nyp_A Pinch protein; LIM domain, protein recognition, cell adhesion; NMR
{Homo sapiens} SCOP: g.39.1.3 g.39.1.3 PDB: 1u5s_B
Length = 66
Score = 46.1 bits (110), Expect = 2e-07
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
WH F C+ C + + ++ R YC H+ +
Sbjct: 24 GKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQ 61
>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene,
transcription, developmental protein; 2.40A {Homo
sapiens} PDB: 2xjz_A
Length = 131
Score = 47.8 bits (114), Expect = 2e-07
Identities = 12/74 (16%), Positives = 29/74 (39%), Gaps = 5/74 (6%)
Query: 79 FVKQLVAPMFCENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFY-RG 137
+++ C +C+ ++ +M++ R + +H CF C+ C + +
Sbjct: 59 YLRLFGQDGLCASCDKRIRAYEMTM---RVK-DKVYHLECFKCAACQKHFCVGDRYLLIN 114
Query: 138 DKLYCGRHHAETLK 151
+ C + E K
Sbjct: 115 SDIVCEQDIYEWTK 128
Score = 47.0 bits (112), Expect = 3e-07
Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 4/54 (7%)
Query: 110 PNSCWHPGCFTCSVCNELLVDLI--YFYRGDKLYCGRHHAETL--KPRCSACDE 159
+ WH C +C +C L ++ +Y+ + C R + C++CD+
Sbjct: 21 IDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDK 74
>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1;
LIM-interaction-domain (LID), metal binding protein; NMR
{Mus musculus} SCOP: g.39.1.3 g.39.1.3
Length = 114
Score = 47.4 bits (112), Expect = 2e-07
Identities = 15/86 (17%), Positives = 27/86 (31%), Gaps = 5/86 (5%)
Query: 110 PNSCWHPGCFTCSVCNELLVDL--IYFYRGDKLYCGRHHAETLKPRCSACDEECQTSSQD 167
+ WH C +C +C L ++ +Y+ + C R + +
Sbjct: 22 IDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGDVMVVGE 81
Query: 168 ILYYLTRDSERDLPDEYRTERLEHQR 193
E DE RLE+ +
Sbjct: 82 P---TLMGGEFGDEDERLITRLENTQ 104
>2l3k_A Rhombotin-2, linker, LIM domain-binding protein 1;
LMO2(LIM2)-LDB1(LID), chimera, fusion protein,
oncoprotein; NMR {Mus musculus} PDB: 2l6y_B 2l6z_C
Length = 123
Score = 47.4 bits (112), Expect = 2e-07
Identities = 13/99 (13%), Positives = 32/99 (32%), Gaps = 5/99 (5%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFY-RGDKLYCGRHHA 147
C +C+ ++ +M++ + +H CF C+ C + + + C +
Sbjct: 11 CASCDKRIRAYEMTMRVK----DKVYHLECFKCAACQKHFSVGDRYLLINSDIVCEQDIY 66
Query: 148 ETLKPRCSACDEECQTSSQDILYYLTRDSERDLPDEYRT 186
E K + ++ T ++ R
Sbjct: 67 EWTKINGGSGGSGGSGGDVMVVGEPTLMGGEFGDEDERL 105
>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM
domain protein; NMR {Rattus rattus} SCOP: g.39.1.3
g.39.1.3
Length = 76
Score = 45.4 bits (108), Expect = 4e-07
Identities = 10/48 (20%), Positives = 14/48 (29%), Gaps = 1/48 (2%)
Query: 111 NSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETL-KPRCSAC 157
WH C C C + L + K YC + P+
Sbjct: 20 GKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGR 67
>2egq_A FHL1 protein; LIM domain, four and A half LIM domains protein 1,
skeletal muscle LIM- protein 1, SLIM 1, structural
genomics NPPSFA; NMR {Homo sapiens}
Length = 77
Score = 45.6 bits (108), Expect = 5e-07
Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 1/60 (1%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
C C++ + WH CF C C+ L + + + +++YC +
Sbjct: 18 CAGCKNPITGFGKGSSVVAYE-GQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK 76
Score = 30.5 bits (69), Expect = 0.095
Identities = 4/23 (17%), Positives = 8/23 (34%)
Query: 137 GDKLYCGRHHAETLKPRCSACDE 159
G G + + +C+ C
Sbjct: 1 GSSGSSGDCYKNFVAKKCAGCKN 23
>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.39.1.3 g.39.1.3
Length = 76
Score = 44.7 bits (106), Expect = 8e-07
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 1/44 (2%)
Query: 114 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETL-KPRCSA 156
WH C C C++ L + K +C + TL S+
Sbjct: 32 WHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS 75
>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the
N-terminal LIM domain of LMO4...; fusion protein, LMO
proteins, metal binding protein; NMR {Mus musculus}
SCOP: g.39.1.3 g.39.1.3
Length = 122
Score = 45.0 bits (106), Expect = 2e-06
Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 2/51 (3%)
Query: 110 PNSCWHPGCFTCSVCNELLVDL--IYFYRGDKLYCGRHHAETLKPRCSACD 158
+S WH C CS C L D+ + + + C + +
Sbjct: 24 MDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGS 74
>3f6q_B LIM and senescent cell antigen-like-containing domain protein 1;
ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK,
IPP; 1.60A {Homo sapiens} PDB: 2kbx_B 3ixe_B
Length = 72
Score = 43.2 bits (102), Expect = 2e-06
Identities = 11/60 (18%), Positives = 24/60 (40%), Gaps = 4/60 (6%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
CE C+ ++ V ++ +H CF C+ C + + +++ + YC
Sbjct: 14 CERCKGGFAPAEKIVNSN----GELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQM 69
>1x68_A FHL5 protein; four-and-A-half LIM protein 5, zinc finger domain, AN
actin- interacting protein, structural genomics, NPPSFA;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 76
Score = 43.3 bits (102), Expect = 2e-06
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 114 WHPGCFTCSVCNELLVDLIYFYRGDKLYC 142
WH CF C C+ LV + + +++C
Sbjct: 31 WHSECFNCGKCSVSLVGKGFLTQNKEIFC 59
>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain,
ablim2, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: g.39.1.3 g.39.1.3
Length = 81
Score = 41.3 bits (97), Expect = 1e-05
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 7/59 (11%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFY-RGDKLYCGRHH 146
C +C+ ++ +S +HP CF C+VC G + C +
Sbjct: 18 CFSCDQFIEGEVVSAL------GKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCS 70
>2l4z_A DNA endonuclease RBBP8, LIM domain transcription LMO4;
protein-protein interaction, LIM-interaction DOM LMO4,
RBBP8/CTIP, LIM-only protein; HET: DNA; NMR {Homo
sapiens}
Length = 123
Score = 42.4 bits (99), Expect = 1e-05
Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 111 NSCWHPGCFTCSVCNELLVD--LIYFYRGDKLYCGRHHAE 148
+S WH C CS C L D + + + C +
Sbjct: 81 DSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 120
>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His
protein, LIM and senescent cell antigen-like domains 1,
structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 79
Score = 40.5 bits (95), Expect = 3e-05
Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 114 WHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAETLKPRCSA 156
+HP F C+ C + L +LYC H + S+
Sbjct: 37 YHPDHFNCANCGKEL-TADARELKGELYCLPCHDKMGVSGPSS 78
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 39.8 bits (92), Expect = 5e-04
Identities = 48/307 (15%), Positives = 84/307 (27%), Gaps = 111/307 (36%)
Query: 4 PSKRCSMVHLYFSSLPEDKVPY----VNSPGEQYRIRQLLHQLPPHDNEVRY-------- 51
PS M L D + V+ ++RQ L +L P N +
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT 164
Query: 52 CHALS--EDERKELRL--------FSAQRKREALGRGFVKQL------VAPMFCENCE-- 93
AL + + ++ E + ++ L + P + +
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV----LEMLQKLLYQIDPNWTSRSDHS 220
Query: 94 -------DELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHH 146
+Q + S+ N LLV L + +
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENC--------------LLV-L------LNVQ----N 255
Query: 147 AETLKPRCSACDEECQTSSQDILYYLTRDSE--RDLPDEYRTE-RLEHQR---------- 193
A+ A + C+ +L TR + L T L+H
Sbjct: 256 AKAWN----AFNLSCKI----LL--TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 194 -----------DLP-ESYGTHRNSLN------KEQNHSFDNLLKSNLKKLSLADSDDVSS 235
DLP E T+ L+ ++ ++DN N KL+ + S
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI----IES 361
Query: 236 SMPELTT 242
S+ L
Sbjct: 362 SLNVLEP 368
>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM
domain EVH1 DO cell motility, phosphorylation,
cytoskeleton; 2.35A {Homo sapiens}
Length = 65
Score = 36.0 bits (83), Expect = 9e-04
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 111 NSCWH--PGCFTCSVCNELLVDLIYFYRGDKLYCGR 144
N WH CF CS C++ L+ + ++C
Sbjct: 23 NFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSV 58
>2co8_A NEDD9 interacting protein with calponin homology and LIM domains;
zinc finger protein, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Length = 82
Score = 34.9 bits (80), Expect = 0.003
Identities = 11/44 (25%), Positives = 14/44 (31%), Gaps = 2/44 (4%)
Query: 114 WHPGCFTCSVCNELLV--DLIYFYRGDKLYCGRHHAETLKPRCS 155
+H CF C C L YC +H +T S
Sbjct: 38 FHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPSS 81
>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: g.39.1.3 g.39.1.3
Length = 73
Score = 33.2 bits (75), Expect = 0.009
Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 114 WHPGCFTCSVCNELLVDLIYFY-RGDKLYCGR 144
+HP C C C ++ + Y +G ++
Sbjct: 27 YHPSCALCVRCGQMFAEGEEMYLQGSSIWHPA 58
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.5 bits (65), Expect = 0.58
Identities = 12/25 (48%), Positives = 13/25 (52%), Gaps = 6/25 (24%)
Query: 219 KSNLKKL--SLAD-SDDVSSSMPEL 240
K LKKL SL +DD S P L
Sbjct: 19 KQALKKLQASLKLYADD---SAPAL 40
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP;
2.37A {Humulus lupulus}
Length = 339
Score = 28.7 bits (64), Expect = 1.7
Identities = 15/97 (15%), Positives = 31/97 (31%), Gaps = 5/97 (5%)
Query: 12 HLYFSSLPEDKVPYVNSPGEQYRIRQLLHQLPPHDNEVRYCHALSEDERKELRLFSAQRK 71
+ + +L D+ + H + + C + K L + A+R
Sbjct: 140 NSFIHALLVDRFD----SSGPGVFEEGSHSVVSSELRYDCCFLWVDVSVKVLTDYLAKRV 195
Query: 72 REALGRGFVKQLVAPMFCENCEDELQTSDMSVFASRA 108
+ L G + +A + ED + S +A
Sbjct: 196 DDMLELGMFDE-LAEFYSPEDEDHDEDSATRTGLRKA 231
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 27.3 bits (60), Expect = 3.8
Identities = 6/25 (24%), Positives = 10/25 (40%), Gaps = 2/25 (8%)
Query: 120 TCSVCNELLVDLIYFY-RGDKLYCG 143
TC C ++ + GD + C
Sbjct: 23 TCPECKVYPPKIVERFSEGD-VVCA 46
>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG;
2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*
Length = 680
Score = 27.7 bits (62), Expect = 4.2
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 6/47 (12%)
Query: 202 HRNSLNKEQNHSFDNLLKSNLKKLSLAD------SDDVSSSMPELTT 242
+ L+ N +F L +NL L L+ +D + +P+L
Sbjct: 230 SNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEY 276
>2c43_A Aminoadipate-semialdehyde dehydrogenase- phosphopantetheinyl
transferase; fatty acid biosynthesis, coenzyme A; HET:
COA; 1.93A {Homo sapiens} PDB: 2byd_A* 2cg5_A*
Length = 323
Score = 27.4 bits (60), Expect = 4.3
Identities = 10/46 (21%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 42 LPPHDNEVRYCHALSEDERKEL-RLFSAQRKREAL-GRGFVKQLVA 85
LP + ++ +E++ + + A+ + A+ GR +++LVA
Sbjct: 37 LPSRAEWLLAVRSIQPEEKERIGQFVFARDAKAAMAGRLMIRKLVA 82
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 27.7 bits (61), Expect = 4.5
Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 7/54 (12%)
Query: 189 LEHQRDLPESYGTHRNSLNKEQNHSFDNLLKSNLKKLSLADSDDVSSSMPELTT 242
LEH +P + + L +EQ F+ +L + + +DD ++ EL
Sbjct: 16 LEHVLLVPTASFFIASQL-QEQ---FNKILPEPTEGFA---ADDEPTTPAELVG 62
Score = 26.6 bits (58), Expect = 9.7
Identities = 3/7 (42%), Positives = 4/7 (57%)
Query: 27 NSPGEQY 33
N +QY
Sbjct: 1847 NVENQQY 1853
>3qis_A Inositol polyphosphate 5-phosphatase OCRL-1; DENT disease, RAC1,
RAB gtpases, APPL1, endocytic PATH golgi complex,
hydrolase-protein binding complex; 2.30A {Homo sapiens}
PDB: 2qv2_A
Length = 366
Score = 27.2 bits (60), Expect = 5.0
Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 6/39 (15%)
Query: 13 LYFSSLPEDKVPY------VNSPGEQYRIRQLLHQLPPH 45
++ +LPE + Y ++S + RQ++ QLP
Sbjct: 258 IFLEALPEPVICYELYQRCLDSAYDPRICRQVISQLPRC 296
>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling
protein; HET: GDP; 2.36A {Geobacillus
stearothermophilus}
Length = 369
Score = 27.2 bits (60), Expect = 6.0
Identities = 19/98 (19%), Positives = 34/98 (34%), Gaps = 17/98 (17%)
Query: 151 KPRCSACDEECQTSSQDILYYLTRDS-ERDLPDEY--RTERLEHQRDLPESYGTHRNSLN 207
+ RC C Q + Y + E+D + R RL+H ++ +
Sbjct: 4 QLRCIGCGAAIQFENPKNAGYAPKSVLEKDAEEVICQRCFRLKHYNEVQD---------V 54
Query: 208 KEQNHSFDNLLKSNLKKLSL----ADSDDVSSSM-PEL 240
+ F ++L + +L D D + S P L
Sbjct: 55 PLDDDDFLSMLHRIGESKALVVNIVDIFDFNGSFIPGL 92
>1f7c_A Rhogap protein; GTPase activating protein, RHO GTPase regulator, BH
domain, signaling protein; 2.40A {Gallus gallus} SCOP:
a.116.1.1
Length = 231
Score = 26.5 bits (59), Expect = 6.6
Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 12/50 (24%)
Query: 8 CSMVHLYFSSLPEDKVPY---------VNSPGEQYR---IRQLLHQLPPH 45
S + Y LP + Y ++ R I L+H+LP
Sbjct: 98 TSALKTYLRMLPGPLMMYQFQRSFIKAAKLENQESRVSEIHSLVHRLPEK 147
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.7 bits (58), Expect = 6.7
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 4/42 (9%)
Query: 174 RDSERDLPDEYRTERL--EHQRDLPESYGTHRNSL--NKEQN 211
R E D + + + ++DL E + NK N
Sbjct: 97 RLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN 138
>1yy9_A Epidermal growth factor receptor; cell surface receptor, tyrosine
kinase, glycoprotein, antigen:antibody complex, FAB
fragment, antitumor, drug; HET: NDG NAG BMA MAN; 2.60A
{Homo sapiens} SCOP: c.10.2.5 c.10.2.5 g.3.9.1 g.3.9.1
PDB: 3qwq_A* 1nql_A* 3b2v_A* 1ivo_A* 3njp_A*
Length = 624
Score = 26.9 bits (58), Expect = 6.8
Identities = 15/79 (18%), Positives = 21/79 (26%), Gaps = 1/79 (1%)
Query: 89 CENCEDELQTSDMSVFASRAGPNSCWHPGCFTCSVCNELLVDLIYFYRGDKLYCGRHHAE 148
N + + V + P CW P C C + KL G
Sbjct: 467 ISNRGENKCKATGQVCHALCSPEGCWGPEPRDCVSCRNVSRG-RECVDKCKLLEGEPREF 525
Query: 149 TLKPRCSACDEECQTSSQD 167
C C EC + +
Sbjct: 526 VENSECIQCHPECLPQAMN 544
>2ee4_A RHO GTPase activating protein 5 variant; all alpha protein,
GTPase-activating protein for RHO family members,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2ee5_A
Length = 209
Score = 26.4 bits (59), Expect = 6.9
Identities = 8/45 (17%), Positives = 19/45 (42%), Gaps = 12/45 (26%)
Query: 13 LYFSSLPEDKVPY---------VNSPGEQYR---IRQLLHQLPPH 45
+F+ LP+ +PY P + R +++++ + P
Sbjct: 89 AFFADLPDPLIPYSLHPELLEAAKIPDKTERLHALKEIVKKFHPV 133
>1qr0_A 4'-phosphopantetheinyl transferase SFP; protein-coenzyme A
complex; HET: COA; 1.90A {Bacillus subtilis} SCOP:
d.150.1.1 d.150.1.1
Length = 228
Score = 26.4 bits (58), Expect = 8.4
Identities = 9/55 (16%), Positives = 24/55 (43%), Gaps = 4/55 (7%)
Query: 33 YRIRQLLHQLPPHDNEVRYCHALSEDERKEL-RLFSAQRKREAL-GRGFVKQLVA 85
Y I + + + R+ +S ++R++ R + + L G V+ +++
Sbjct: 4 YGIY--MDRPLSQEENERFMTFISPEKREKCRRFYHKEDAHRTLLGDVLVRSVIS 56
>2pmi_A Negative RE, cyclin-dependent protein kinase PHO85;
cyclin-dependent kinase, signaling protein,transfera
cycle complex; HET: MES AGS; 2.90A {Saccharomyces
cerevisiae} PDB: 2pk9_A*
Length = 317
Score = 26.4 bits (59), Expect = 9.0
Identities = 6/40 (15%), Positives = 13/40 (32%), Gaps = 6/40 (15%)
Query: 1 MLK--PSKRCS----MVHLYFSSLPEDKVPYVNSPGEQYR 34
+L+ P R S + H +F+ + +
Sbjct: 277 LLQLNPDMRLSAKQALHHPWFAEYYHHASMGGSRSHHHHH 316
>3mtl_A Cell division protein kinase 16; pctaire1, indirubin, structural
genomics, structural consortium, SGC, transferase; HET:
FEF; 2.40A {Homo sapiens}
Length = 324
Score = 26.4 bits (59), Expect = 9.4
Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 6/30 (20%)
Query: 1 MLK--PSKRCS----MVHLYFSSLPEDKVP 24
+L+ R S M H +F SL E
Sbjct: 265 LLQFEGRNRISAEDAMKHPFFLSLGERIHK 294
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 26.5 bits (59), Expect = 9.9
Identities = 9/14 (64%), Positives = 11/14 (78%), Gaps = 3/14 (21%)
Query: 165 SQDI---LYYLTRD 175
SQD+ LYY+TRD
Sbjct: 503 SQDVVLGLYYMTRD 516
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.133 0.410
Gapped
Lambda K H
0.267 0.0715 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,659,590
Number of extensions: 210214
Number of successful extensions: 747
Number of sequences better than 10.0: 1
Number of HSP's gapped: 721
Number of HSP's successfully gapped: 127
Length of query: 242
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 151
Effective length of database: 4,160,982
Effective search space: 628308282
Effective search space used: 628308282
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.4 bits)