RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2238
(311 letters)
>3p4g_A Antifreeze protein; right-handed Ca2+-binding beta-helix; 1.70A
{Marinomonas primoryensis}
Length = 323
Score = 37.5 bits (87), Expect = 0.004
Identities = 11/70 (15%), Positives = 19/70 (27%), Gaps = 2/70 (2%)
Query: 241 NGDDYD--DEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGG 298
D D ++D+ +GG + G G N +N +D +
Sbjct: 130 LSGDLDAGTDNDNIQIGGDVNAALNAGTGNDNLIIGHDVSGIVNMGTDNDTVEVGRTINA 189
Query: 299 YSGFSYGGGG 308
G
Sbjct: 190 SGKVLLDTGD 199
Score = 31.3 bits (71), Expect = 0.31
Identities = 12/72 (16%), Positives = 20/72 (27%), Gaps = 8/72 (11%)
Query: 241 NGDDY---DDEDDDYDVGGGYSGFSYGGGGA-TNSRSHKFGRQQLNGDDYDDEDDDYDVG 296
+ +D+ + G S G G G D +D+ +G
Sbjct: 91 DVLGKIDAGTGNDEIYIKGDVSAAVDAGTGNDEVYIGGNLSGDLDAGTD----NDNIQIG 146
Query: 297 GGYSGFSYGGGG 308
G + G G
Sbjct: 147 GDVNAALNAGTG 158
Score = 31.3 bits (71), Expect = 0.39
Identities = 15/65 (23%), Positives = 22/65 (33%), Gaps = 3/65 (4%)
Query: 244 DYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGYSGFS 303
D +D+ +GG SG G N + LN +D+ +G SG
Sbjct: 116 DAGTGNDEVYIGGNLSGDLDAGTDNDNIQIGGDVNAALNA---GTGNDNLIIGHDVSGIV 172
Query: 304 YGGGG 308
G
Sbjct: 173 NMGTD 177
Score = 30.9 bits (70), Expect = 0.45
Identities = 14/68 (20%), Positives = 17/68 (25%)
Query: 241 NGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGYS 300
D DD V G G GG G + G +D +
Sbjct: 191 GKVLLDTGDDSLLVSGDLFGEVDGGTGNDTIIIAGKVSGNIQGGTGNDIVRVQSQVWAEA 250
Query: 301 GFSYGGGG 308
S G G
Sbjct: 251 NISLGTGD 258
Score = 29.8 bits (67), Expect = 1.1
Identities = 13/79 (16%), Positives = 19/79 (24%), Gaps = 16/79 (20%)
Query: 236 GRQQLNGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDE------ 289
+N +D + G + L D E
Sbjct: 168 VSGIVNMGTDNDTVEVGRTINASGKVLLDTGDDSL----------LVSGDLFGEVDGGTG 217
Query: 290 DDDYDVGGGYSGFSYGGGG 308
+D + G SG GG G
Sbjct: 218 NDTIIIAGKVSGNIQGGTG 236
Score = 28.6 bits (64), Expect = 2.4
Identities = 13/72 (18%), Positives = 19/72 (26%), Gaps = 5/72 (6%)
Query: 242 GDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDD-----EDDDYDVG 296
G +D +++ V G S G L + +D V
Sbjct: 30 GSAFDASNNNVAVTGNVSATLNVLAGDDKVSIDGNVEDVLVAANVAVLDMGTGNDQLYVA 89
Query: 297 GGYSGFSYGGGG 308
G G G G
Sbjct: 90 GDVLGKIDAGTG 101
Score = 28.6 bits (64), Expect = 2.5
Identities = 7/70 (10%), Positives = 15/70 (21%), Gaps = 14/70 (20%)
Query: 240 LNGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGY 299
+ + + +G G + G++ DD Y
Sbjct: 240 VRVQSQVWAEANISLGTGDDVLIVEHELHG----------TVAGNE----GDDSIYLKFY 285
Query: 300 SGFSYGGGGA 309
+ Y
Sbjct: 286 TKEQYNNNSD 295
Score = 28.2 bits (63), Expect = 3.7
Identities = 14/78 (17%), Positives = 18/78 (23%), Gaps = 9/78 (11%)
Query: 241 NGDDYD--DEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDD-------EDD 291
N D +D V G G G G ++ +D
Sbjct: 73 NVAVLDMGTGNDQLYVAGDVLGKIDAGTGNDEIYIKGDVSAAVDAGTGNDEVYIGGNLSG 132
Query: 292 DYDVGGGYSGFSYGGGGA 309
D D G GG
Sbjct: 133 DLDAGTDNDNIQIGGDVN 150
Score = 28.2 bits (63), Expect = 3.8
Identities = 7/76 (9%), Positives = 13/76 (17%), Gaps = 16/76 (21%)
Query: 241 NGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDE------DDDYD 294
D + + Y G ++ + DD
Sbjct: 11 FWDGTSTQAEITHSFDHYIGSAFDASNNNV----------AVTGNVSATLNVLAGDDKVS 60
Query: 295 VGGGYSGFSYGGGGAT 310
+ G A
Sbjct: 61 IDGNVEDVLVAANVAV 76
Score = 26.7 bits (59), Expect = 9.8
Identities = 11/56 (19%), Positives = 18/56 (32%), Gaps = 2/56 (3%)
Query: 253 DVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGYSGFSYGGGG 308
+V S + G +H F G +D +++ V G S G
Sbjct: 2 NVSQSNSFGFWDGTSTQAEITHSFD--HYIGSAFDASNNNVAVTGNVSATLNVLAG 55
>3fip_A Outer membrane usher protein PAPC; beta barrel, protein
translocase, cell membrane, cell outer fimbrium,
transmembrane, transport; 3.15A {Escherichia coli} PDB:
2vqi_A*
Length = 493
Score = 35.3 bits (81), Expect = 0.021
Identities = 14/79 (17%), Positives = 25/79 (31%), Gaps = 4/79 (5%)
Query: 226 LSMSTRSHKFGRQQLNGDDYDDEDDDYDVGGGYSGFSYGGGGATNSR--SHKFGRQQLNG 283
S S + ++ D ++D D Y + G + + SH+ L+
Sbjct: 411 YSGSMSNDRYVNMAGYTDTFNDGLDSYSLNAGLNSGGGLTSQRQINAYYSHRSPLANLSA 470
Query: 284 DDYDDEDDDYD-VGGGYSG 301
+ Y G SG
Sbjct: 471 -NIASLQKGYTSFGVSASG 488
>2qub_A Extracellular lipase; beta roll, alpha/beta hydrolase, helical
hairpin, hydrolase; 1.80A {Serratia marcescens} PDB:
2qua_A
Length = 615
Score = 35.0 bits (80), Expect = 0.030
Identities = 8/73 (10%), Positives = 17/73 (23%), Gaps = 5/73 (6%)
Query: 241 NGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDD-----EDDDYDV 295
+ DD + + G + +G + DD
Sbjct: 441 DAKGGITLADDISTLRSKETSWLIFNKEVDHQVTAAGLKSDSGLKAYAAATGGDGDDVLQ 500
Query: 296 GGGYSGFSYGGGG 308
+ + +G G
Sbjct: 501 ARSHDAWLFGNAG 513
Score = 31.6 bits (71), Expect = 0.39
Identities = 8/69 (11%), Positives = 11/69 (15%), Gaps = 4/69 (5%)
Query: 241 NGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGYS 300
+ D S T+ D G
Sbjct: 432 YDGNTLYLRDAKGGITLADDISTLRSKETSWLIFNKEVDHQVTAA----GLKSDSGLKAY 487
Query: 301 GFSYGGGGA 309
+ GG G
Sbjct: 488 AAATGGDGD 496
Score = 30.0 bits (67), Expect = 1.2
Identities = 7/71 (9%), Positives = 14/71 (19%), Gaps = 8/71 (11%)
Query: 241 NGDD--YDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGG 298
D + G + RS + +++ D+ V
Sbjct: 423 QALKNTEVAYDGNTLYLRDAKGGITLADDISTLRS------KETSWLIFNKEVDHQVTAA 476
Query: 299 YSGFSYGGGGA 309
G
Sbjct: 477 GLKSDSGLKAY 487
Score = 29.6 bits (66), Expect = 1.4
Identities = 7/74 (9%), Positives = 13/74 (17%), Gaps = 11/74 (14%)
Query: 241 NGDDY---DDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGG 297
G + + +D G T + R + DD
Sbjct: 405 GGYNLIAGGKGHNIFDTQQALKNTEVAYDGNTL-----YLR---DAKGGITLADDISTLR 456
Query: 298 GYSGFSYGGGGATN 311
+
Sbjct: 457 SKETSWLIFNKEVD 470
Score = 29.3 bits (65), Expect = 1.7
Identities = 5/72 (6%), Positives = 9/72 (12%), Gaps = 16/72 (22%)
Query: 241 NGDD--YDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGG 298
G + + Y G +D
Sbjct: 414 KGHNIFDTQQALKNTEVAYDGNTLYLRDA--------------KGGITLADDISTLRSKE 459
Query: 299 YSGFSYGGGGAT 310
S +
Sbjct: 460 TSWLIFNKEVDH 471
Score = 29.3 bits (65), Expect = 2.0
Identities = 8/69 (11%), Positives = 16/69 (23%), Gaps = 2/69 (2%)
Query: 241 NGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGYS 300
D +S +T S+ G+ + ++ +
Sbjct: 314 LSHLPFFYQDGLMRVLNSEFYSLTDKDSTIIVSN--LSNVTRGNTWVEDLNRNAETHSGP 371
Query: 301 GFSYGGGGA 309
F G G
Sbjct: 372 TFIIGSDGN 380
Score = 29.3 bits (65), Expect = 2.1
Identities = 19/93 (20%), Positives = 26/93 (27%), Gaps = 17/93 (18%)
Query: 236 GRQQLNGDDYDDE------DDDYDVGGGYSGFSYGGGGA-TNSRSHKFGRQQLNGDDYDD 288
L G+ +D + VGG G G T S FGR QL G + D
Sbjct: 504 HDAWLFGNAGNDTLIGHAGGNLTFVGGSGDDILKGVGNGNTFLFSGDFGRDQLYGFNASD 563
Query: 289 ----------EDDDYDVGGGYSGFSYGGGGATN 311
+ D + G +
Sbjct: 564 KLVFIGTEGASGNIRDYATQQNDDLVLAFGHSQ 596
Score = 28.1 bits (62), Expect = 4.0
Identities = 14/75 (18%), Positives = 28/75 (37%), Gaps = 5/75 (6%)
Query: 242 GDD--YDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYD---DEDDDYDVG 296
GDD + + + G G G + + G + +G+ D ++DD +
Sbjct: 532 GDDILKGVGNGNTFLFSGDFGRDQLYGFNASDKLVFIGTEGASGNIRDYATQQNDDLVLA 591
Query: 297 GGYSGFSYGGGGATN 311
G+S + G +
Sbjct: 592 FGHSQVTLIGVSLDH 606
Score = 28.1 bits (62), Expect = 4.7
Identities = 14/90 (15%), Positives = 22/90 (24%), Gaps = 16/90 (17%)
Query: 236 GRQQLNGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDE------ 289
G+ + ++ + F G G + K G L G D DD
Sbjct: 348 LSNVTRGNTWVEDLNRNAETHSGPTFIIGSDGNDLIKGGK-GNDYLEGRDGDDIFRDAGG 406
Query: 290 ---------DDDYDVGGGYSGFSYGGGGAT 310
+ +D G T
Sbjct: 407 YNLIAGGKGHNIFDTQQALKNTEVAYDGNT 436
>2dtg_E Insulin receptor; IR ectodomain, X-RAY crystallography, hormone
receptor/immune system complex; 3.80A {Homo sapiens}
SCOP: b.1.2.1 b.1.2.1 b.1.2.1 c.10.2.5 c.10.2.5 g.3.9.1
PDB: 3loh_E
Length = 897
Score = 34.5 bits (78), Expect = 0.047
Identities = 27/167 (16%), Positives = 42/167 (25%), Gaps = 18/167 (10%)
Query: 42 CDKCKRKQKNRAFCYFCQSVQR-LPQC-GHCGKIKCMLKTGDCVIKHAGVFSTGMGMVGA 99
C N F C + C C C + C H+
Sbjct: 166 KTNCPATVINGQFVERCWTHSHCQKVCPTICKSHGCTAEGLCC---HSECLGNCSQPDDP 222
Query: 100 -ICDFCEAWICHGRKCLQTHACTCP-----LQDAVCLECERGVWDHGGRVYKCC-FCEGF 152
C C + +C++T CP QD C+ H C +
Sbjct: 223 TKCVACRNFY-LDGRCVET----CPPPYYHFQDWRCVNFSFCQDLHHKCKNSRRQGCHQY 277
Query: 153 LCEDDQ-FEHQASCQVLESENYKCKSCNKLGQYSCLRCKICFCEDHA 198
+ +++ S + S N C C C + D
Sbjct: 278 VIHNNKCIPECPSGYTMNSSNLLCTPCLGPCPKVCHLLEGEKTIDSV 324
>3rfz_B Outer membrane usher protein, type 1 fimbrial SYN; beta-barrel,
pilus assembly, outer-membrane, cell adhesion-T
protein-chaperone complex; 2.80A {Escherichia coli} PDB:
3ohn_A 1zdv_A
Length = 843
Score = 33.8 bits (77), Expect = 0.089
Identities = 19/87 (21%), Positives = 29/87 (33%), Gaps = 12/87 (13%)
Query: 227 SMSTRSHKFGRQQ--LNGDDYDDEDDDYDVGGGYSGFSYGGGGATN--SRSHKFGRQQLN 282
SMS + + G +D + Y V GY+G G G+T + +++ G N
Sbjct: 577 SMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYATLNYRGGYGNAN 636
Query: 283 GDDYDDEDDDYDVGGGYSGFSYGGGGA 309
Y YG G
Sbjct: 637 I--------GYSHSDDIKQLYYGVSGG 655
>2z8x_A Lipase; beta roll, calcium binding protein, RTX protein, hydrolase;
1.48A {Pseudomonas SP} PDB: 2zvd_A 3a6z_A 3a70_A* 2z8z_A
2zj6_A 2zj7_A
Length = 617
Score = 32.7 bits (74), Expect = 0.17
Identities = 8/72 (11%), Positives = 15/72 (20%), Gaps = 3/72 (4%)
Query: 242 GDD--YDDEDDDYDVGGGYSGF-SYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGG 298
+D + D G + N S + +
Sbjct: 253 ENDPVFRALDGSTFTGASVGVHDAPKESATDNIVSFNDHYASTAWNLLPFSILNIPTWIS 312
Query: 299 YSGFSYGGGGAT 310
+ +YG G
Sbjct: 313 HLPTAYGDGMNR 324
Score = 32.7 bits (74), Expect = 0.17
Identities = 11/75 (14%), Positives = 20/75 (26%), Gaps = 8/75 (10%)
Query: 242 GDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDD-----EDDDYDVG 296
+ + GG ++ +Y + S + LN +D D G
Sbjct: 212 AVNSMADLSGGKWGGFFADSNYIAYASPTQSS---TDKVLNVGYENDPVFRALDGSTFTG 268
Query: 297 GGYSGFSYGGGGATN 311
AT+
Sbjct: 269 ASVGVHDAPKESATD 283
Score = 30.8 bits (69), Expect = 0.60
Identities = 10/76 (13%), Positives = 15/76 (19%), Gaps = 8/76 (10%)
Query: 236 GRQQLNGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDV 295
G L+ + D + G G GG + +R G E
Sbjct: 412 GNNTLDLQKSVNTFDFANDGAGNLYVRDANGGISITRD--------IGSIVTKEPGFLWG 463
Query: 296 GGGYSGFSYGGGGATN 311
Sbjct: 464 LFKDDVTHSVTASGLK 479
Score = 27.3 bits (60), Expect = 7.1
Identities = 8/70 (11%), Positives = 11/70 (15%), Gaps = 8/70 (11%)
Query: 241 NGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGYS 300
D+ +D Y T Y D + Y
Sbjct: 281 ATDNIVSFNDHYASTAWNLLPFSILNIPTWISH--------LPTAYGDGMNRIIESKFYD 332
Query: 301 GFSYGGGGAT 310
S
Sbjct: 333 LTSKDSTIIV 342
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.58
Identities = 9/51 (17%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 3 KKKTGQRKKAEKMKLRQKEIRSARDKMSVAEFPCNANMECDKCKRKQKNRA 53
+++ ++ K+ ++E R K + E+ + + + K K NR
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKK-DLEEWNQRQSEQVE--KNKINNRI 140
>2y2x_A OPDK, vanillate porin OPDK; membrane protein, outer membrane, OPRD,
transport; HET: C8E VNL; 1.65A {Pseudomonas aeruginosa
PA01} PDB: 2qtk_A* 3sys_A*
Length = 390
Score = 30.5 bits (68), Expect = 0.76
Identities = 16/94 (17%), Positives = 25/94 (26%), Gaps = 14/94 (14%)
Query: 226 LSMSTRSHKFGRQQLNGDDYDDEDDDYDVGG----------GYSGFSYGGGGAT----NS 271
+ R++ F R + D D++ G G G G NS
Sbjct: 11 TDLVLRNYYFNRDFRDHDAGKSLVDEWAQGFILKFSSGYTPGTVGVGLDAIGLFGVKLNS 70
Query: 272 RSHKFGRQQLNGDDYDDEDDDYDVGGGYSGFSYG 305
+ L D D+Y G +
Sbjct: 71 GRGTSNSELLPLHDDGRAADNYGRVGVAAKLRVS 104
>1pho_A Phosphoporin; outer membrane protein; 3.00A {Escherichia coli}
SCOP: f.4.3.1
Length = 330
Score = 29.9 bits (67), Expect = 1.1
Identities = 12/73 (16%), Positives = 21/73 (28%), Gaps = 5/73 (6%)
Query: 239 QLNGDDYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGG 298
+ G+ + + ++G Y G S +GR D + D + GG
Sbjct: 59 EFAGNKAESDTAQQKTRLAFAGLKYKDLG-----SFDYGRNLGALYDVEAWTDMFPEFGG 113
Query: 299 YSGFSYGGGGATN 311
S
Sbjct: 114 DSSAQTDNFMTKR 126
>2qts_A Acid-sensing ION channel; trimer, membrane protein; HET: MAL NAG;
1.90A {Gallus gallus} PDB: 3hgc_A 3ij4_A
Length = 438
Score = 29.7 bits (65), Expect = 1.2
Identities = 16/113 (14%), Positives = 30/113 (26%), Gaps = 5/113 (4%)
Query: 123 PLQDAVCLECERGVWDHGGRVYKCCFCEGFLCEDDQFEHQASCQVLESENYKCKSCNKLG 182
+ C+ + + C E +C++ Y ++CN
Sbjct: 242 APGFQTFVSCQEQRLIYLPPPWGDCKATTGDSEFYDTYSITACRIDCETRYLVENCNCRM 301
Query: 183 QYSCLRCKICFCEDHAR-----RKGFKYEKNKPIPCPKCGFETSQTKDLSMST 230
+ C E + + N+ C T K+LSM
Sbjct: 302 VHMPGDAPYCTPEQYKECADPALDFLVEKDNEYCVCEMPCNVTRYGKELSMVK 354
>1q14_A HST2 protein; histone deacetylase, hydrolase; 2.50A {Saccharomyces
cerevisiae} SCOP: c.31.1.5
Length = 361
Score = 28.8 bits (64), Expect = 2.1
Identities = 6/33 (18%), Positives = 12/33 (36%)
Query: 185 SCLRCKICFCEDHARRKGFKYEKNKPIPCPKCG 217
C+ C + + K ++ + C CG
Sbjct: 146 HCIGCGKVYPPQVFKSKLAEHPIKDFVKCDVCG 178
>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 = 29.2 bits (65), Expect = 2.2
Identities = 17/129 (13%), Positives = 34/129 (26%), Gaps = 44/129 (34%)
Query: 83 VIKHAGVFSTGMGMVG-------AICDFCEAWICHGRKCLQTHACTCPLQDAVCLECERG 135
+K G+ G A+ A + ++ V + RG
Sbjct: 1746 DLKSKGLIPADATFAGHSLGEYAALA--SLA------DVM-------SIESLVEVVFYRG 1790
Query: 136 VW-------DHGGR-VYKCCFCE----GFLCEDDQFEH------QASCQVLESENYKCKS 177
+ D GR Y + ++ + + ++E NY ++
Sbjct: 1791 MTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVEN 1850
Query: 178 CNKLGQYSC 186
QY
Sbjct: 1851 ----QQYVA 1855
>1q1a_A HST2 protein; ternary complex, histone deacetylase, 2'-O-ADP
ribose,, gene regulation; HET: ALY OAD; 1.50A
{Saccharomyces cerevisiae} SCOP: c.31.1.5 PDB: 1szd_A*
1szc_A* 2od7_A* 2od9_A* 2qqf_A* 2qqg_A* 1q17_A* 2od2_A*
Length = 289
Score = 28.5 bits (64), Expect = 2.8
Identities = 6/33 (18%), Positives = 12/33 (36%)
Query: 185 SCLRCKICFCEDHARRKGFKYEKNKPIPCPKCG 217
C+ C + + K ++ + C CG
Sbjct: 138 HCIGCGKVYPPQVFKSKLAEHPIKDFVKCDVCG 170
>1t8s_A AMP nucleosidase; alpha-beta-alpha sandwich, alpha-beta fold,
hydrolase; HET: FMP; 2.60A {Escherichia coli} SCOP:
c.56.2.1 PDB: 1t8r_A* 1t8w_A 1t8y_A 2guw_A
Length = 484
Score = 28.4 bits (63), Expect = 3.1
Identities = 9/43 (20%), Positives = 14/43 (32%), Gaps = 6/43 (13%)
Query: 67 CGHCGKIKCMLKTGDCVIKHAGVFSTG------MGMVGAICDF 103
GHCG ++ GD V+ HA + +
Sbjct: 303 IGHCGGLRESQAIGDYVLAHAYLRDDHVLDAVLPPDIPIPSIA 345
>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 75
Score = 26.5 bits (58), Expect = 3.2
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 3/39 (7%)
Query: 142 RVYKCCFCEGFLCEDDQFEHQASCQVLESENYKCKSCNK 180
R+ C C+ L EH+ C + C +C +
Sbjct: 16 RLAVCQHCDLELSILKLKEHEDYC---GARTELCGNCGR 51
>3nsg_A Outer membrane protein F; porin, beta barrel, beta barrel MEMB
protein; HET: LDA TAM FLC TLA; 2.79A {Salmonella
enterica subsp}
Length = 341
Score = 28.4 bits (63), Expect = 3.3
Identities = 17/91 (18%), Positives = 24/91 (26%), Gaps = 17/91 (18%)
Query: 235 FGRQQLNGDDYDDEDDDYDVGGGYSGFSYGGGGATNSR---------SHKFGRQ------ 279
+GR D + D G + SR S FG
Sbjct: 93 YGRNYGIVYDVESYTDMAPYFSGETWGGAYTDNYMTSRAGGLLTYRNSDFFGLVDGLSFG 152
Query: 280 -QLNGDDYDDEDDDYDVGGGYS-GFSYGGGG 308
Q G + D+ + G G +Y G
Sbjct: 153 IQYQGKNQDNHSINSQNGDGVGYTMAYEFDG 183
>2agm_A Poly(beta-D-mannuronate) C5 epimerase 4; parallel beta-roll,
isomerase; NMR {Azotobacter vinelandii}
Length = 167
Score = 27.6 bits (61), Expect = 4.2
Identities = 10/68 (14%), Positives = 19/68 (27%)
Query: 244 DYDDEDDDYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGYSGFS 303
D++ +D D+ G G T + ++ + + G
Sbjct: 74 DFEASEDRIDLSALGFSGLGDGYGGTLLLKTNAEGTRTYLKSFEADAEGRRFEVALDGDH 133
Query: 304 YGGGGATN 311
G A N
Sbjct: 134 TGDLSAAN 141
>2y0h_A Probable porin, OPDL; transport protein, outer membrane, OPRD; HET:
C8E; 2.20A {Pseudomonas aeruginosa} PDB: 3t0s_A*
Length = 391
Score = 27.8 bits (61), Expect = 4.9
Identities = 16/95 (16%), Positives = 28/95 (29%), Gaps = 15/95 (15%)
Query: 226 LSMSTRSHKFGRQQLNGDDYDDEDDDYDVGG------GYSGFSYGGGGAT--------NS 271
+ R+ R D + ++ G G++G G G +S
Sbjct: 8 AHLDLRNFYQLRDYRQHDAPQSQAGNWSQGFVLRLQSGFTGGPLGFGLDATGLLGVKLDS 67
Query: 272 RSHKFGRQQL-NGDDYDDEDDDYDVGGGYSGFSYG 305
+ L G + + DDY G + Y
Sbjct: 68 GRGRSNDGTLPFGANSKEPVDDYSHLGLTAKLRYS 102
>3sy9_A Histidine porin OPDC; beta-barrel, channel, bacterial outer
membrane, membrane Pro; HET: C8E BOG; 2.80A {Pseudomonas
aeruginosa}
Length = 430
Score = 28.0 bits (61), Expect = 4.9
Identities = 10/55 (18%), Positives = 14/55 (25%)
Query: 251 DYDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGYSGFSYG 305
D G GGGG + G + D++ GG
Sbjct: 59 GVDAYGMLGLKLDGGGGTGGTSILPITSPSKEGYESGKAPDEFSSGGAALKIRAF 113
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 27.1 bits (59), Expect = 5.3
Identities = 16/95 (16%), Positives = 22/95 (23%), Gaps = 8/95 (8%)
Query: 112 RKCLQTH---ACTCPLQDAVCLECERGVWDHGGRVYKCCFCEGFLCEDDQFEHQASCQVL 168
+CL+ A TCP G C C E Q
Sbjct: 38 SQCLRDSLKNANTCPTCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVST-- 95
Query: 169 ESENYKCKSCNKL---GQYSCLRCKICFCEDHARR 200
E + C C + +C C+
Sbjct: 96 ECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP 130
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 27.6 bits (62), Expect = 5.5
Identities = 9/56 (16%), Positives = 13/56 (23%), Gaps = 4/56 (7%)
Query: 184 YSCLRCKICFCEDHARRKGFKYEKNKPIPCPKCGFETSQTKDLSMSTRSHKFGRQQ 239
Y + + + P CPKCG + K Q
Sbjct: 136 YKHIHPDCMQEFEWPEDEEMPEVLEMPTICPKCGKPGQ----FRLIPEKTKLIDWQ 187
>2zfg_A Outer membrane protein F; OMPF porin, ordered waters, ION
transport, phage recognition, transmembrane, transport;
HET: C8E; 1.59A {Escherichia coli} SCOP: f.4.3.1 PDB:
1opf_A* 2omf_A* 2zld_A 3k19_A 3k1b_A 3o0e_A* 3poq_A*
3pou_A* 3pox_A* 3hw9_A* 3hwb_A* 1hxx_A 3fyx_A* 1bt9_A
1mpf_A* 1gfq_A* 1gfp_A* 1gfm_A* 1gfo_A* 1hxu_A ...
Length = 340
Score = 27.7 bits (61), Expect = 6.0
Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 4/48 (8%)
Query: 252 YDVGGGYSGFSYGGGGATNSRSHKFGRQQLNGDDYDDEDDDYDVGGGY 299
YD Y +YG ++KF N + ++ D + Y
Sbjct: 220 YDANNIYLAANYGETRNATPITNKFT----NTSGFANKTQDVLLVAQY 263
>2dmi_A Teashirt homolog 3; zinc finger protein 537, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 115
Score = 26.7 bits (58), Expect = 6.0
Identities = 16/98 (16%), Positives = 28/98 (28%), Gaps = 10/98 (10%)
Query: 139 HGGRVYKCCFC-EGFLCEDDQFEHQASCQVLESENYKCKSCNKLGQYSCLRCKICFCEDH 197
G ++C C + + H +N++ + N +
Sbjct: 15 TGASKFRCKDCSAAYDTLVELTVHMNETGHYRDDNHETDNNNPKRWSK-------PRKRS 67
Query: 198 ARRKGFKYEKNKPIPCPKCGFETSQTKDLS--MSTRSH 233
K + K + C CG +DLS M H
Sbjct: 68 LLEMEGKEDAQKVLKCMYCGHSFESLQDLSVHMIKTKH 105
>2z0q_A XPLN, RHO guanine nucleotide exchange factor 3; DH-PH domain,
alternative splicing, cytoplasm, guanine- nucleotide
releasing factor; 1.79A {Mus musculus} PDB: 3eo2_A
Length = 346
Score = 27.4 bits (61), Expect = 7.2
Identities = 4/23 (17%), Positives = 7/23 (30%)
Query: 46 KRKQKNRAFCYFCQSVQRLPQCG 68
K+++ F Q P
Sbjct: 123 DHKKQDHRVQDFLQRCLESPFSR 145
>3avr_A Lysine-specific demethylase 6A; cupin superfamily,
TRI/dimethyllysine demethylase, oxidoredu structural
protein complex; HET: M3L OGA EDO; 1.80A {Homo sapiens}
PDB: 3avs_A*
Length = 531
Score = 27.5 bits (60), Expect = 7.3
Identities = 15/83 (18%), Positives = 26/83 (31%), Gaps = 3/83 (3%)
Query: 4 KKTGQRKKAEKMKLRQKEIRSARDKMSVAEFPCNANMECDKCKRKQKNRAFCYFCQSVQR 63
K R + LR+ I + ++ + C C+ + + F +S R
Sbjct: 423 KYCLLRTLKQCQTLREALIAAGKEIIWHGRTKEEPAHYCSICEVEVFDLLFV-TNESNSR 481
Query: 64 LPQCGHCGKIKCMLKTGDCVIKH 86
HC C KT +
Sbjct: 482 KTYIVHC--QDCARKTSGNLENF 502
>1xcg_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; X-RAY
crystallography, regulation of RHOA GTPase, protein
complex; 2.50A {Homo sapiens} SCOP: a.87.1.1 b.55.1.1
PDB: 3kz1_A*
Length = 368
Score = 27.1 bits (60), Expect = 7.4
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 46 KRKQKNRAFCYFCQSVQRLPQCG 68
+++K F F Q + PQC
Sbjct: 132 TKQRKESRFQLFMQEAESHPQCR 154
>3i1i_A Homoserine O-acetyltransferase; structural genomics, IDP01610,
O-acetyltransfera bacillus anthracis; HET: MSE; 2.44A
{Bacillus anthracis str}
Length = 377
Score = 26.9 bits (60), Expect = 9.0
Identities = 2/22 (9%), Positives = 6/22 (27%)
Query: 233 HKFGRQQLNGDDYDDEDDDYDV 254
+ R + + Y+
Sbjct: 239 TTYPRNSIEVEPYEKVSSLTSF 260
Score = 26.9 bits (60), Expect = 9.0
Identities = 2/22 (9%), Positives = 6/22 (27%)
Query: 274 HKFGRQQLNGDDYDDEDDDYDV 295
+ R + + Y+
Sbjct: 239 TTYPRNSIEVEPYEKVSSLTSF 260
>3py7_A Maltose-binding periplasmic protein,paxillin LD1, chimera; viral
protein; HET: MLR; 2.29A {Escherichia coli}
Length = 523
Score = 27.1 bits (60), Expect = 9.3
Identities = 27/99 (27%), Positives = 43/99 (43%), Gaps = 28/99 (28%)
Query: 119 ACTCPLQDAVCLECERGVWD------------HGGRV----YKCCFCEGFLCEDDQFEHQ 162
ACT L++ CL ER +W HG + +CC+C G L ++++ H
Sbjct: 435 ACTICLEN--CLATERRLWQGVPVTGEEAELLHGKTLDRLCIRCCYCGGKLTKNEKHRH- 491
Query: 163 ASCQVLESENYKCKSCNKLGQYSCLRCKICFCEDHARRK 201
VL +E + CK+ + + C C C +R K
Sbjct: 492 ----VLFNEPF-CKTRANIIRGRCYDC----CRHGSRSK 521
>3p6a_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 2.50A {Homo
sapiens} PDB: 3odo_A
Length = 377
Score = 26.8 bits (59), Expect = 9.3
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 46 KRKQKNRAFCYFCQSVQRLPQCGHCGKIKCMLK 78
+++K+ FC F Q + P+C +
Sbjct: 139 AKQRKDPRFCAFVQEAESRPRCRRLQLKDMIPT 171
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
0.322 0.139 0.466
Gapped
Lambda K H
0.267 0.0548 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,904,024
Number of extensions: 302009
Number of successful extensions: 1680
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1538
Number of HSP's successfully gapped: 272
Length of query: 311
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 218
Effective length of database: 4,105,140
Effective search space: 894920520
Effective search space used: 894920520
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 (21.9 bits)
S2: 57 (26.1 bits)