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= psy710
(591 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OAJ|A Chain A, Crystal Structure Of Sro7 From S. Cerevisiae
Length = 902
Score = 86.3 bits (212), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 109/477 (22%), Positives = 200/477 (41%), Gaps = 68/477 (14%)
Query: 159 SKTFRHGFPYQPTAIAFDPIQKLLAIGTKTGSLRLLGRPGVDAHVRHETDAAVIQMQFLT 218
++T ++G +P A AFD Q LLAI T TG + + G+ V+ ++ E +A+ +M+F+
Sbjct: 9 AETNKYGMSSKPIAAAFDFTQNLLAIATVTGEVHIYGQQQVEVVIKLEDRSAIKEMRFVK 68
Query: 219 NEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVGTEKGNIHV 278
L+ A D++++ + ++ V + F +IT I W+ +G + G++ V
Sbjct: 69 GI-YLVVINAKDTVYVLSLYSQK---VLTTVFVPGKITSIDTDASLDWMLIGLQNGSMIV 124
Query: 279 VNIESFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLDPSKLLLAYE----TGLVVHWD 334
+I+ LS + ++ + PI+ + NP D +L++YE T +V +
Sbjct: 125 YDIDRDQLSSFKLDNLQKSSFFPAARLSPIVSIQWNPRDIGTVLISYEYVTLTYSLVENE 184
Query: 335 LKLK----------RAEFRWQCSE----PIKSVCWHYEGKQFLCSHTDGTISTWAVRP-- 378
+K +F + +E + +H + H D ++ W
Sbjct: 185 IKQSFIYELPPFAPGGDFSEKTNEKRTPKVIQSLYHPNSLHIITIHEDNSLVFWDANSGH 244
Query: 379 --LAKPV---SVNQPHIKTNKDGKLEQCKPIQKVEWKHSRSGEGFVIF----------SG 423
+A+ V +N P +D K I KV W + E + +
Sbjct: 245 MIMARTVFETEINVPQPDYIRDSSTNAAK-ISKVYWMCENNPEYTSLLISHKSISRGDNQ 303
Query: 424 GLTYDKAGRSPSISV-----MHN-----KTTTVLEMEHNV--VDFVTL-CESPYICEMQE 470
LT G +P S+ M N K + + NV V+ + + +SPY
Sbjct: 304 SLTMIDLGYTPRYSITSYEGMKNYYANPKQMKIFPLPTNVPIVNILPIPRQSPYFAGCHN 363
Query: 471 PYAIVVLLHNDLVVIDLLTPG-FPCFENPYPMDIH-ESPVTCCVYLADCPSDLIPAFYSV 528
P I+++L N + L G F + +P ++ P+ A P+ L +
Sbjct: 364 PGLILLILGNGEIETMLYPSGIFTDKASLFPQNLSWLRPLATTSMAASVPNKLW-----L 418
Query: 529 GARGASKRTGFSEKEWPLSGG---EWSPTSCSYYEVILTGHADGSVKFWDASAGNLQ 582
GA A++ K++ L GG + Y +TGH++GSV+ +DAS G++Q
Sbjct: 419 GALSAAQ-----NKDYLLKGGVRTKRQKLPAEYGTAFITGHSNGSVRIYDASHGDIQ 470
Score = 62.0 bits (149), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 41/157 (26%), Positives = 78/157 (49%), Gaps = 4/157 (2%)
Query: 1 TFRHGFPYQPTAIAFDPIQKLLAIGTKTGSLRLLGRPGVDAHVRHETDAAVIQMQFLTNE 60
T ++G +P A AFD Q LLAI T TG + + G+ V+ ++ E +A+ +M+F+
Sbjct: 11 TNKYGMSSKPIAAAFDFTQNLLAIATVTGEVHIYGQQQVEVVIKLEDRSAIKEMRFVKGI 70
Query: 61 GALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVGTEKGNIHVVN 120
L+ A D++++ + ++ V + F +IT I W+ +G + G++ V +
Sbjct: 71 -YLVVINAKDTVYVLSLYSQK---VLTTVFVPGKITSIDTDASLDWMLIGLQNGSMIVYD 126
Query: 121 IESFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLD 157
I+ LS + ++ + PI+ + NP D
Sbjct: 127 IDRDQLSSFKLDNLQKSSFFPAARLSPIVSIQWNPRD 163
>pdb|2YNO|A Chain A, Yeast Betaprime Cop 1-304h6
pdb|2YNO|B Chain B, Yeast Betaprime Cop 1-304h6
Length = 310
Score = 35.8 bits (81), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 55/287 (19%), Positives = 106/287 (36%), Gaps = 54/287 (18%)
Query: 51 VIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVG 110
V + F E ++T + LWN+ + V S++ + + W+ VG
Sbjct: 16 VKGIDFHPTEPWVLTTLYSGRVELWNYETQVE--VRSIQVTETPVRAGKFIARKNWIIVG 73
Query: 111 TEKGNIHVVNIES------------------------FTLSGY------IINW--NKAID 138
++ I V N + + LSG + NW N A++
Sbjct: 74 SDDFRIRVFNYNTGEKVVDFEAHPDYIRSIAVHPTKPYVLSGSDDLTVKLWNWENNWALE 133
Query: 139 VCMKTHPGPIIHLSDNPLDPSKTFRHGFPYQPTAIAFDPIQKLLAIGTKTGSLRLLGRPG 198
+ H ++ ++ NP DPS TF G D K+ ++G T P
Sbjct: 134 QTFEGHEHFVMCVAFNPKDPS-TFASG--------CLDRTVKVWSLGQST--------PN 176
Query: 199 VDAHVRHETDAAVIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYI 258
E + L ++ +ITA+ D ++ +W+++ K V +L+ +++
Sbjct: 177 FTLTTGQERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQTK--SCVATLEGHMSNVSFA 234
Query: 259 HLPLQSKWLYVGTEKGNIHVVNIESFTLSGYIINWNKAIDVCMKTHP 305
+ G+E G + + N ++ + +N C+ THP
Sbjct: 235 VFHPTLPIIISGSEDGTLKIWNSSTYKVEK-TLNVGLERSWCIATHP 280
>pdb|2YNN|A Chain A, Yeast Betaprime Cop 1-304 With Ktktn Motif
Length = 304
Score = 35.8 bits (81), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 55/287 (19%), Positives = 106/287 (36%), Gaps = 54/287 (18%)
Query: 51 VIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVG 110
V + F E ++T + LWN+ + V S++ + + W+ VG
Sbjct: 16 VKGIDFHPTEPWVLTTLYSGRVELWNYETQVE--VRSIQVTETPVRAGKFIARKNWIIVG 73
Query: 111 TEKGNIHVVNIES------------------------FTLSGY------IINW--NKAID 138
++ I V N + + LSG + NW N A++
Sbjct: 74 SDDFRIRVFNYNTGEKVVDFEAHPDYIRSIAVHPTKPYVLSGSDDLTVKLWNWENNWALE 133
Query: 139 VCMKTHPGPIIHLSDNPLDPSKTFRHGFPYQPTAIAFDPIQKLLAIGTKTGSLRLLGRPG 198
+ H ++ ++ NP DPS TF G D K+ ++G T P
Sbjct: 134 QTFEGHEHFVMCVAFNPKDPS-TFASG--------CLDRTVKVWSLGQST--------PN 176
Query: 199 VDAHVRHETDAAVIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYI 258
E + L ++ +ITA+ D ++ +W+++ K V +L+ +++
Sbjct: 177 FTLTTGQERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQTK--SCVATLEGHMSNVSFA 234
Query: 259 HLPLQSKWLYVGTEKGNIHVVNIESFTLSGYIINWNKAIDVCMKTHP 305
+ G+E G + + N ++ + +N C+ THP
Sbjct: 235 VFHPTLPIIISGSEDGTLKIWNSSTYKVEK-TLNVGLERSWCIATHP 280
>pdb|1GXR|A Chain A, Wd40 Region Of Human Groucho/tle1
pdb|1GXR|B Chain B, Wd40 Region Of Human Groucho/tle1
pdb|2CE8|A Chain A, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|B Chain B, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|C Chain C, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|D Chain D, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|A Chain A, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|B Chain B, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|C Chain C, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|D Chain D, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain
Length = 337
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 35/196 (17%), Positives = 74/196 (37%), Gaps = 8/196 (4%)
Query: 48 DAAVIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWL 107
D + + L + LI +L +W+ P I L + + SK
Sbjct: 97 DNYIRSCKLLPDGCTLIVGGEASTLSIWDLAAPTPRIKAELTSSAPACYALAISPDSKVC 156
Query: 108 YVGTEKGNIHVVNIESFTLSGYIINWNKAIDVCMKTHPGPIIHLS--DNPL------DPS 159
+ GNI V ++ + TL ++ G + DN + +
Sbjct: 157 FSCCSDGNIAVWDLHNQTLVRQFQGHTDGASCIDISNDGTKLWTGGLDNTVRSWDLREGR 216
Query: 160 KTFRHGFPYQPTAIAFDPIQKLLAIGTKTGSLRLLGRPGVDAHVRHETDAAVIQMQFLTN 219
+ +H F Q ++ + P + LA+G ++ ++ +L D + H ++ V+ ++F
Sbjct: 217 QLQQHDFTSQIFSLGYCPTGEWLAVGMESSNVEVLHVNKPDKYQLHLHESCVLSLKFAYC 276
Query: 220 EGALITATADDSLHLW 235
++ D+ L+ W
Sbjct: 277 GKWFVSTGKDNLLNAW 292
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 36/73 (49%)
Query: 3 RHGFPYQPTAIAFDPIQKLLAIGTKTGSLRLLGRPGVDAHVRHETDAAVIQMQFLTNEGA 62
+H F Q ++ + P + LA+G ++ ++ +L D + H ++ V+ ++F
Sbjct: 220 QHDFTSQIFSLGYCPTGEWLAVGMESSNVEVLHVNKPDKYQLHLHESCVLSLKFAYCGKW 279
Query: 63 LITATADDSLHLW 75
++ D+ L+ W
Sbjct: 280 FVSTGKDNLLNAW 292
>pdb|2YNP|A Chain A, Yeast Betaprime Cop 1-604 With Ktktn Motif
Length = 604
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 55/287 (19%), Positives = 106/287 (36%), Gaps = 54/287 (18%)
Query: 51 VIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVG 110
V + F E ++T + LWN+ + V S++ + + W+ VG
Sbjct: 16 VKGIDFHPTEPWVLTTLYSGRVELWNYETQVE--VRSIQVTETPVRAGKFIARKNWIIVG 73
Query: 111 TEKGNIHVVNIES------------------------FTLSGY------IINW--NKAID 138
++ I V N + + LSG + NW N A++
Sbjct: 74 SDDFRIRVFNYNTGEKVVDFEAHPDYIRSIAVHPTKPYVLSGSDDLTVKLWNWENNWALE 133
Query: 139 VCMKTHPGPIIHLSDNPLDPSKTFRHGFPYQPTAIAFDPIQKLLAIGTKTGSLRLLGRPG 198
+ H ++ ++ NP DPS TF G D K+ ++G T P
Sbjct: 134 QTFEGHEHFVMCVAFNPKDPS-TFASG--------CLDRTVKVWSLGQST--------PN 176
Query: 199 VDAHVRHETDAAVIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYI 258
E + L ++ +ITA+ D ++ +W+++ K V +L+ +++
Sbjct: 177 FTLTTGQERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQTK--SCVATLEGHMSNVSFA 234
Query: 259 HLPLQSKWLYVGTEKGNIHVVNIESFTLSGYIINWNKAIDVCMKTHP 305
+ G+E G + + N ++ + +N C+ THP
Sbjct: 235 VFHPTLPIIISGSEDGTLKIWNSSTYKVEK-TLNVGLERSWCIATHP 280
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 27/128 (21%), Positives = 57/128 (44%), Gaps = 4/128 (3%)
Query: 63 LITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVGTEKGNIHVVNIE 122
+ITA+ D ++ +W+++ K V +L+ +++ + G+E G + + N
Sbjct: 201 MITASDDLTIKIWDYQTK--SCVATLEGHMSNVSFAVFHPTLPIIISGSEDGTLKIWNSS 258
Query: 123 SFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLDPSKTFRHGFPYQPTAIAFDPIQKLL 182
++ + +N C+ THP + + D T +PT ++ DP+ KL+
Sbjct: 259 TYKVEK-TLNVGLERSWCIATHPTGRKNYIASGFDNGFTVLSLGNDEPT-LSLDPVGKLV 316
Query: 183 AIGTKTGS 190
G K +
Sbjct: 317 WSGGKNAA 324
>pdb|4GQB|B Chain B, Crystal Structure Of The Human Prmt5:mep50 Complex
Length = 344
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 38/174 (21%), Positives = 72/174 (41%), Gaps = 20/174 (11%)
Query: 206 ETDAAVIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSL-KFQRERITYIHLPLQS 264
+T+A V + ++ G L+ A+ ++ LW + IV K++ + I L S
Sbjct: 80 QTEAGVADLTWVGERGILV-ASDSGAVELWELDENETLIVSKFCKYEHDDIVSTVSVLSS 138
Query: 265 KWLYV-GTEKGNIHVVNI-ESFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLDPSKLL 322
V G++ I V ++ + LS Y + H + ++ +P S L
Sbjct: 139 GTQAVSGSKDICIKVWDLAQQVVLSSY------------RAHAAQVTCVAASPHKDSVFL 186
Query: 323 LAYETGLVVHWDLKLKRAEFRWQCSEP---IKSVCWH-YEGKQFLCSHTDGTIS 372
E ++ WD + + + CS P S+ WH + + F+ +GT+S
Sbjct: 187 SCSEDNRILLWDTRCPKPASQIGCSAPGYLPTSLAWHPQQSEVFVFGDENGTVS 240
>pdb|4I79|A Chain A, Crystal Structure Of Human Nup43
pdb|4I79|B Chain B, Crystal Structure Of Human Nup43
Length = 399
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 25/116 (21%), Positives = 48/116 (41%), Gaps = 15/116 (12%)
Query: 223 LITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHL----PLQSKWLYVGTEKGNIHV 278
++T + L +W+FRQ+ E L +R+ +H P Q + G + G + +
Sbjct: 205 ILTVNSIGQLKIWDFRQQGNEPSQILSLTGDRVP-LHCVDRHPNQQHVVATGGQDGMLSI 263
Query: 279 VNIESFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLDPSKLLLAYETGLVVHWD 334
++ T+ + +K H + + +P +P L E G + HWD
Sbjct: 264 WDVRQGTMPVSL----------LKAHEAEMWEVHFHPSNPEHLFTCSEDGSLWHWD 309
>pdb|3EI4|B Chain B, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|D Chain D, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|F Chain F, Structure Of The Hsddb1-Hsddb2 Complex
Length = 436
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 45/246 (18%), Positives = 96/246 (39%), Gaps = 24/246 (9%)
Query: 156 LDPSKTFRHGFPY--QPTAIAFDPIQ-KLLAIGTKTGSLRL--LGRPGVDAHVRH-ETDA 209
LD + + P+ + T++A+ P +A+G+K G + L G ++
Sbjct: 107 LDSYRILQKAAPFDRRATSLAWHPTHPSTVAVGSKGGDIMLWNFGIKDKPTFIKGIGAGG 166
Query: 210 AVIQMQFL-TNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLY 268
++ ++F N ++ + + L +F+ + S + + S+ +
Sbjct: 167 SITGLKFNPLNTNQFYASSMEGTTRLQDFKGNILRVFASSDTINIWFCSLDVSASSRMVV 226
Query: 269 VGTEKGNIHVVNIESFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLDPSKLLLAYETG 328
G GN+ ++N++ L WN ++ H + H++ NP L A
Sbjct: 227 TGDNVGNVILLNMDGKEL------WN------LRMHKKKVTHVALNPCCDWFLATASVDQ 274
Query: 329 LVVHWDLKLKRAEFRWQCS----EPIKSVCWHYEGKQFLCSHTDGTISTWAVRPLAKPVS 384
V WDL+ R + + S P+ + C+ +G + L + I ++ P+
Sbjct: 275 TVKIWDLRQVRGKASFLYSLPHRHPVNAACFSPDGARLLTTDQKSEIRVYSASQWDCPLG 334
Query: 385 -VNQPH 389
+ PH
Sbjct: 335 LIPHPH 340
>pdb|4E5Z|B Chain B, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
(Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
Repair
Length = 436
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 45/246 (18%), Positives = 96/246 (39%), Gaps = 24/246 (9%)
Query: 156 LDPSKTFRHGFPY--QPTAIAFDPIQ-KLLAIGTKTGSLRL--LGRPGVDAHVRH-ETDA 209
LD + + P+ + T++A+ P +A+G+K G + L G ++
Sbjct: 106 LDSYRILQKAAPFDRRATSLAWHPTHPSTVAVGSKGGDIMLWNFGIKDKPTFIKGIGAGG 165
Query: 210 AVIQMQFL-TNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLY 268
++ ++F N ++ + + L +F+ + S + + S+ +
Sbjct: 166 SITGLKFNPLNTNQFYASSMEGTTRLQDFKGNILRVFASSDTINIWFCSLDVSASSRMVV 225
Query: 269 VGTEKGNIHVVNIESFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLDPSKLLLAYETG 328
G GN+ ++N++ L WN ++ H + H++ NP L A
Sbjct: 226 TGDNVGNVILLNMDGKEL------WN------LRMHKKKVTHVALNPCCDWFLATASVDQ 273
Query: 329 LVVHWDLKLKRAEFRWQCS----EPIKSVCWHYEGKQFLCSHTDGTISTWAVRPLAKPVS 384
V WDL+ R + + S P+ + C+ +G + L + I ++ P+
Sbjct: 274 TVKIWDLRQVRGKASFLYSLPHRHPVNAACFSPDGARLLTTDQKSEIRVYSASQWDCPLG 333
Query: 385 -VNQPH 389
+ PH
Sbjct: 334 LIPHPH 339
>pdb|4E54|B Chain B, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
(Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
Repair
Length = 435
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 45/246 (18%), Positives = 96/246 (39%), Gaps = 24/246 (9%)
Query: 156 LDPSKTFRHGFPY--QPTAIAFDPIQ-KLLAIGTKTGSLRL--LGRPGVDAHVRH-ETDA 209
LD + + P+ + T++A+ P +A+G+K G + L G ++
Sbjct: 106 LDSYRILQKAAPFDRRATSLAWHPTHPSTVAVGSKGGDIMLWNFGIKDKPTFIKGIGAGG 165
Query: 210 AVIQMQFL-TNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLY 268
++ ++F N ++ + + L +F+ + S + + S+ +
Sbjct: 166 SITGLKFNPLNTNQFYASSMEGTTRLQDFKGNILRVFASSDTINIWFCSLDVSASSRMVV 225
Query: 269 VGTEKGNIHVVNIESFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLDPSKLLLAYETG 328
G GN+ ++N++ L WN ++ H + H++ NP L A
Sbjct: 226 TGDNVGNVILLNMDGKEL------WN------LRMHKKKVTHVALNPCCDWFLATASVDQ 273
Query: 329 LVVHWDLKLKRAEFRWQCS----EPIKSVCWHYEGKQFLCSHTDGTISTWAVRPLAKPVS 384
V WDL+ R + + S P+ + C+ +G + L + I ++ P+
Sbjct: 274 TVKIWDLRQVRGKASFLYSLPHRHPVNAACFSPDGARLLTTDQKSEIRVYSASQWDCPLG 333
Query: 385 -VNQPH 389
+ PH
Sbjct: 334 LIPHPH 339
>pdb|3MKQ|A Chain A, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|C Chain C, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|E Chain E, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
Length = 814
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 51/275 (18%), Positives = 102/275 (37%), Gaps = 54/275 (19%)
Query: 63 LITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVGTEKGNIHVVNIE 122
++T + +WN+ + V S++ + + W+ VG++ I V N
Sbjct: 28 VLTTLYSGRVEIWNYETQVE--VRSIQVTETPVRAGKFIARKNWIIVGSDDFRIRVFNYN 85
Query: 123 S------------------------FTLSGY------IINW--NKAIDVCMKTHPGPIIH 150
+ + LSG + NW N A++ + H ++
Sbjct: 86 TGEKVVDFEAHPDYIRSIAVHPTKPYVLSGSDDLTVKLWNWENNWALEQTFEGHEHFVMC 145
Query: 151 LSDNPLDPSKTFRHGFPYQPTAIAFDPIQKLLAIGTKTGSLRLLGRPGVDAHVRHETDAA 210
++ NP DPS TF G D K+ ++G T P E
Sbjct: 146 VAFNPKDPS-TFASG--------CLDRTVKVWSLGQST--------PNFTLTTGQERGVN 188
Query: 211 VIQMQFLTNEGALITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVG 270
+ L ++ +ITA+ D ++ +W+++ K V +L+ +++ + G
Sbjct: 189 YVDYYPLPDKPYMITASDDLTIKIWDYQTK--SCVATLEGHMSNVSFAVFHPTLPIIISG 246
Query: 271 TEKGNIHVVNIESFTLSGYIINWNKAIDVCMKTHP 305
+E G + + N ++ + +N C+ THP
Sbjct: 247 SEDGTLKIWNSSTYKVEK-TLNVGLERSWCIATHP 280
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 27/128 (21%), Positives = 57/128 (44%), Gaps = 4/128 (3%)
Query: 63 LITATADDSLHLWNFRQKRPEIVHSLKFQRERITYIHLPLQSKWLYVGTEKGNIHVVNIE 122
+ITA+ D ++ +W+++ K V +L+ +++ + G+E G + + N
Sbjct: 201 MITASDDLTIKIWDYQTK--SCVATLEGHMSNVSFAVFHPTLPIIISGSEDGTLKIWNSS 258
Query: 123 SFTLSGYIINWNKAIDVCMKTHPGPIIHLSDNPLDPSKTFRHGFPYQPTAIAFDPIQKLL 182
++ + +N C+ THP + + D T +PT ++ DP+ KL+
Sbjct: 259 TYKVEK-TLNVGLERSWCIATHPTGRKNYIASGFDNGFTVLSLGNDEPT-LSLDPVGKLV 316
Query: 183 AIGTKTGS 190
G K +
Sbjct: 317 WSGGKNAA 324
>pdb|3GC2|A Chain A, 1.85 Angstrom Crystal Structure Of O-Succinylbenzoate
Synthase From Salmonella Typhimurium In Complex With
Succinic Acid
Length = 323
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 323 LAYETGLVVHWDLKLKRAEFRWQCSEPIKSV 353
A ETG+ + WD L+ A+F ++ E +++V
Sbjct: 205 FARETGIAIAWDESLREADFTFEAEEGVRAV 235
>pdb|1YQ2|A Chain A, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|B Chain B, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|C Chain C, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|D Chain D, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|E Chain E, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|F Chain F, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
Length = 1024
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 28/136 (20%), Positives = 48/136 (35%), Gaps = 9/136 (6%)
Query: 316 LDPSKLLLAYETGLVVHWDLKLKRAEFRWQCSEPIKSVCWHYEGKQFLCSHTDGTISTWA 375
LD +L L + W+L R RW + W G + S+ D +T
Sbjct: 848 LDGGELCLRIDITPSAGWNLVWPRIGVRWDLPTDVDGAAWFGAGPR--ESYPDSMHATMV 905
Query: 376 VRPLAKPVSVNQPHIKTNKDGKLEQCKPIQKVEWKHSRSGEGFVIFSGGLTYDKAGRSPS 435
R A +N P+ + + G + ++ R+G ++ D AGR P
Sbjct: 906 ARHAASLEELNVPYARPQETGHRSDVRWLEL-----DRAGAPWLRIDA--EPDAAGRRPG 958
Query: 436 ISVMHNKTTTVLEMEH 451
S+ + + H
Sbjct: 959 FSLARHTAQEIAAAGH 974
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 12/95 (12%)
Query: 9 QPTAIAFDPIQKLLAIGTKTGSLRLLGRPG---VDAHVRHETDAAVIQMQFLTNEGALIT 65
Q + P + +A G + G+++++ P + V H+ AV +QF + LI+
Sbjct: 963 QVSCCCLSPHLEYVAFGDEDGAIKIIELPNNRVFSSGVGHK--KAVRHIQFTADGKTLIS 1020
Query: 66 ATADDSLHLWN-------FRQKRPEIVHSLKFQRE 93
++ D + +WN F Q E V + ++
Sbjct: 1021 SSEDSVIQVWNWQTGDYVFLQAHQETVKDFRLLQD 1055
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 12/95 (12%)
Query: 169 QPTAIAFDPIQKLLAIGTKTGSLRLLGRPG---VDAHVRHETDAAVIQMQFLTNEGALIT 225
Q + P + +A G + G+++++ P + V H+ AV +QF + LI+
Sbjct: 963 QVSCCCLSPHLEYVAFGDEDGAIKIIELPNNRVFSSGVGHK--KAVRHIQFTADGKTLIS 1020
Query: 226 ATADDSLHLWN-------FRQKRPEIVHSLKFQRE 253
++ D + +WN F Q E V + ++
Sbjct: 1021 SSEDSVIQVWNWQTGDYVFLQAHQETVKDFRLLQD 1055
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine
Apaf-1
Length = 1256
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 12/95 (12%)
Query: 9 QPTAIAFDPIQKLLAIGTKTGSLRLLGRPG---VDAHVRHETDAAVIQMQFLTNEGALIT 65
Q + P + +A G + G+++++ P + V H+ AV +QF + LI+
Sbjct: 970 QVSCCCLSPHLEYVAFGDEDGAIKIIELPNNRVFSSGVGHKK--AVRHIQFTADGKTLIS 1027
Query: 66 ATADDSLHLWN-------FRQKRPEIVHSLKFQRE 93
++ D + +WN F Q E V + ++
Sbjct: 1028 SSEDSVIQVWNWQTGDYVFLQAHQETVKDFRLLQD 1062
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 12/95 (12%)
Query: 169 QPTAIAFDPIQKLLAIGTKTGSLRLLGRPG---VDAHVRHETDAAVIQMQFLTNEGALIT 225
Q + P + +A G + G+++++ P + V H+ AV +QF + LI+
Sbjct: 970 QVSCCCLSPHLEYVAFGDEDGAIKIIELPNNRVFSSGVGHKK--AVRHIQFTADGKTLIS 1027
Query: 226 ATADDSLHLWN-------FRQKRPEIVHSLKFQRE 253
++ D + +WN F Q E V + ++
Sbjct: 1028 SSEDSVIQVWNWQTGDYVFLQAHQETVKDFRLLQD 1062
>pdb|3ZWL|B Chain B, Structure Of Eukaryotic Translation Initiation Factor
Eif3i Complex With Eif3b C-Terminus (655-700)
pdb|3ZWL|D Chain D, Structure Of Eukaryotic Translation Initiation Factor
Eif3i Complex With Eif3b C-Terminus (655-700)
Length = 369
Score = 28.5 bits (62), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 547 SGGEWSPTSCSYYEVILTGHADGSVKFWDASAGNLQVLYKLKTP 590
+G WS + + +TG AD S+K WD S G +K P
Sbjct: 74 TGTIWSIDVDCFTKYCVTGSADYSIKLWDVSNGQCVATWKSPVP 117
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.137 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,349,397
Number of Sequences: 62578
Number of extensions: 850205
Number of successful extensions: 1936
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1898
Number of HSP's gapped (non-prelim): 58
length of query: 591
length of database: 14,973,337
effective HSP length: 104
effective length of query: 487
effective length of database: 8,465,225
effective search space: 4122564575
effective search space used: 4122564575
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)