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= psy5940
(278 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DNW|A Chain A, Crystal Structure Of Uvb-Resistance Protein Uvr8
pdb|4DNW|B Chain B, Crystal Structure Of Uvb-Resistance Protein Uvr8
Length = 374
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 58/233 (24%), Positives = 93/233 (39%), Gaps = 20/233 (8%)
Query: 30 EVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXXX 89
EVY WG LG G+ P + +L IKQ+ H + V+ +G V
Sbjct: 77 EVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRN 136
Query: 90 XXXXXXXXXXXXXXXPKKLN-FEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
P+K+ FE + + M + +H+ + G ++ G +
Sbjct: 137 QNGQLGLGDTEDSLVPQKIQAFEGIR----IKMVAAGAEHTAAVTEDGDLYGWGWGRYGN 192
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSV-VYSSREVYTFGIHA-GQLGHS 206
LGL +V R + + + V CG H++ V S +YT+G GQLGH
Sbjct: 193 LGLGDRTDRLVP----ERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHG 248
Query: 207 PVTVSSASVIEPKVQATIIREDLPGFIFESNRGTKHSFTAETSLGPEFGGGWT 259
+ +I K++A FI + + G +H+ A TS G +G GW
Sbjct: 249 DL---EDHLIPHKLEALS-----NSFISQISGGWRHTM-ALTSDGKLYGWGWN 292
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 42/178 (23%), Positives = 73/178 (41%), Gaps = 9/178 (5%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXX 88
++Y WG NLG G + R VPE + S + V H++ VS G ++
Sbjct: 180 GDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGW 239
Query: 89 XXXXXXXXXXXXXXXXPKKLNFEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
P KL + ++ S H++ L G ++ G N F Q
Sbjct: 240 SKYGQLGHGDLEDHLIPHKLEALSNSF---ISQISGGWRHTMALTSDGKLYGWGWNKFGQ 296
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVVYSSR-EVYTFGIHA-GQLG 204
+G+ +++ +P+ + Q ++ V CG H++ + R V+ +G GQLG
Sbjct: 297 VGVG---NNLDQCSPV-QVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLG 350
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 119 VAMASISQDHSVFLMLSGSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGV 178
V + S HSV L+ V G QLG P+P S+L Q ++ V
Sbjct: 6 VLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDR---PSPTQLSALDGHQ-IVSV 61
Query: 179 CCGRFHSVVY--SSREVYTFGIHA-GQLGH 205
CG H+V Y S EVY++G G+LGH
Sbjct: 62 TCGADHTVAYSQSGMEVYSWGWGDFGRLGH 91
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSL 59
N V+ WG N LG G R+ P+++++L
Sbjct: 336 NNVFAWGRGTNGQLGIGESVDRNFPKIIEAL 366
>pdb|4D9S|A Chain A, Crystal Structure Of Arabidopsis Thaliana Uvr8 (Uv
Resistance Locus 8)
pdb|4D9S|B Chain B, Crystal Structure Of Arabidopsis Thaliana Uvr8 (Uv
Resistance Locus 8)
Length = 406
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 58/233 (24%), Positives = 93/233 (39%), Gaps = 20/233 (8%)
Query: 30 EVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXXX 89
EVY WG LG G+ P + +L IKQ+ H + V+ +G V
Sbjct: 89 EVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRN 148
Query: 90 XXXXXXXXXXXXXXXPKKLN-FEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
P+K+ FE + + M + +H+ + G ++ G +
Sbjct: 149 QNGQLGLGDTEDSLVPQKIQAFEGIR----IKMVAAGAEHTAAVTEDGDLYGWGWGRYGN 204
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVVYS-SREVYTFGIHA-GQLGHS 206
LGL +V R + + + V CG H++ S S +YT+G GQLGH
Sbjct: 205 LGLGDRTDRLVP----ERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHG 260
Query: 207 PVTVSSASVIEPKVQATIIREDLPGFIFESNRGTKHSFTAETSLGPEFGGGWT 259
+ +I K++A FI + + G +H+ A TS G +G GW
Sbjct: 261 DL---EDHLIPHKLEALS-----NSFISQISGGWRHTM-ALTSDGKLYGWGWN 304
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 42/178 (23%), Positives = 73/178 (41%), Gaps = 9/178 (5%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXX 88
++Y WG NLG G + R VPE + S + V H++ VS G ++
Sbjct: 192 GDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGW 251
Query: 89 XXXXXXXXXXXXXXXXPKKLNFEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
P KL + ++ S H++ L G ++ G N F Q
Sbjct: 252 SKYGQLGHGDLEDHLIPHKLEALSNSF---ISQISGGWRHTMALTSDGKLYGWGWNKFGQ 308
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVVYSSR-EVYTFGIHA-GQLG 204
+G+ +++ +P+ + Q ++ V CG H++ + R V+ +G GQLG
Sbjct: 309 VGVG---NNLDQCSPV-QVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLG 362
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 119 VAMASISQDHSVFLMLSGSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGV 178
V + S HSV L+ V G QLG P+P S+L Q ++ V
Sbjct: 18 VLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDR---PSPTQLSALDGHQ-IVSV 73
Query: 179 CCGRFHSVVY--SSREVYTFGIHA-GQLGH 205
CG H+V Y S EVY++G G+LGH
Sbjct: 74 TCGADHTVAYSQSGMEVYSWGWGDFGRLGH 103
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSL 59
N V+ WG N LG G R+ P+++++L
Sbjct: 348 NNVFAWGRGTNGQLGIGESVDRNFPKIIEAL 378
>pdb|4DNV|A Chain A, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
Protein Uvr8
pdb|4DNV|B Chain B, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
Protein Uvr8
pdb|4DNV|C Chain C, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
Protein Uvr8
pdb|4DNV|D Chain D, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
Protein Uvr8
Length = 370
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 58/233 (24%), Positives = 93/233 (39%), Gaps = 20/233 (8%)
Query: 30 EVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXXX 89
EVY WG LG G+ P + +L IKQ+ H + V+ +G V
Sbjct: 77 EVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRN 136
Query: 90 XXXXXXXXXXXXXXXPKKLN-FEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
P+K+ FE + + M + +H+ + G ++ G +
Sbjct: 137 QNGQLGLGDTEDSLVPQKIQAFEGIR----IKMVAAGAEHTAAVTEDGDLYGWGWGRYGN 192
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSV-VYSSREVYTFGIHA-GQLGHS 206
LGL +V R + + + V CG H++ V S +YT+G GQLGH
Sbjct: 193 LGLGDRTDRLVP----ERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHG 248
Query: 207 PVTVSSASVIEPKVQATIIREDLPGFIFESNRGTKHSFTAETSLGPEFGGGWT 259
+ +I K++A FI + + G +H+ A TS G +G GW
Sbjct: 249 DL---EDHLIPHKLEALS-----NSFISQISGGFRHTM-ALTSDGKLYGWGWN 292
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 41/179 (22%), Positives = 75/179 (41%), Gaps = 11/179 (6%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXX 88
EV WG N N LG G + VP+ + + + IK V H+ V++DG ++
Sbjct: 128 GEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGW 187
Query: 89 XXXXXXXXXXXXXXXXPKKLNFEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
P+++ + ++M + H++ + SG+++ G + + Q
Sbjct: 188 GRYGNLGLGDRTDRLVPERVTSTGGEK---MSMVACGWRHTISVSYSGALYTYGWSKYGQ 244
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRF-HSVVYSSR-EVYTFGIHA-GQLG 204
LG H+ IP S I G F H++ +S ++Y +G + GQ+G
Sbjct: 245 LGHGDLEDHL-----IPHKLEALSNSFISQISGGFRHTMALTSDGKLYGWGWNKFGQVG 298
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 42/178 (23%), Positives = 73/178 (41%), Gaps = 9/178 (5%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXX 88
++Y WG NLG G + R VPE + S + V H++ VS G ++
Sbjct: 180 GDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGW 239
Query: 89 XXXXXXXXXXXXXXXXPKKLNFEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
P KL + ++ S H++ L G ++ G N F Q
Sbjct: 240 SKYGQLGHGDLEDHLIPHKLEALSNSF---ISQISGGFRHTMALTSDGKLYGWGWNKFGQ 296
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVVYSSR-EVYTFGIHA-GQLG 204
+G+ +++ +P+ + Q ++ V CG H++ + R V+ +G GQLG
Sbjct: 297 VGVG---NNLDQCSPV-QVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLG 350
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 119 VAMASISQDHSVFLMLSGSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGV 178
V + S HSV L+ V G QLG P+P S+L Q ++ V
Sbjct: 6 VLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDR---PSPTQLSALDGHQ-IVSV 61
Query: 179 CCGRFHSVVY--SSREVYTFGIHA-GQLGH 205
CG H+V Y S EVY++G G+LGH
Sbjct: 62 TCGADHTVAYSQSGMEVYSWGWGDFGRLGH 91
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSL 59
N V+ WG N LG G R+ P+++++L
Sbjct: 336 NNVFAWGRGTNGQLGIGESVDRNFPKIIEAL 366
>pdb|4DNU|A Chain A, Crystal Structure Of The W285a Mutant Of Uvb-Resistance
Protein Uvr8
Length = 372
Score = 50.4 bits (119), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 61/233 (26%), Positives = 91/233 (39%), Gaps = 20/233 (8%)
Query: 30 EVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXXX 89
EVY WG LG G+ P + +L IKQ+ H + V+ +G V
Sbjct: 79 EVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTXEGEVQSWGRN 138
Query: 90 XXXXXXXXXXXXXXXPKKLN-FEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
P+K+ FE + K A A +H+ + G ++ G +
Sbjct: 139 QNGQLGLGDTEDSLVPQKIQAFEGIRIKXVAAGA----EHTAAVTEDGDLYGWGWGRYGN 194
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSV-VYSSREVYTFGIHA-GQLGHS 206
LGL +V K S V CG H++ V S +YT+G GQLGH
Sbjct: 195 LGLGDRTDRLVPERVTSTGGEKXSX----VACGWRHTISVSYSGALYTYGWSKYGQLGHG 250
Query: 207 PVTVSSASVIEPKVQATIIREDLPGFIFESNRGTKHSFTAETSLGPEFGGGWT 259
+ +I K++A FI + + G +H+ A TS G +G GW
Sbjct: 251 DL---EDHLIPHKLEALS-----NSFISQISGGARHT-XALTSDGKLYGWGWN 294
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 119 VAMASISQDHSVFLMLSGSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGV 178
V + S HSV L+ V G QLG P+P S+L Q ++ V
Sbjct: 8 VLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDR---PSPTQLSALDGHQ-IVSV 63
Query: 179 CCGRFHSVVY--SSREVYTFGIHA-GQLGH 205
CG H+V Y S EVY++G G+LGH
Sbjct: 64 TCGADHTVAYSQSGXEVYSWGWGDFGRLGH 93
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSL 59
N V+ WG N LG G R+ P+++++L
Sbjct: 338 NNVFAWGRGTNGQLGIGESVDRNFPKIIEAL 368
>pdb|3KCI|A Chain A, The Third Rld Domain Of Herc2
Length = 389
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 45/200 (22%), Positives = 80/200 (40%), Gaps = 15/200 (7%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDK--FHSVFVSDDGRVWXX 86
++Y WG LG + + P+L+++L+ + + ++ ++DD VW
Sbjct: 178 GDLYTWGKGRYGRLGHSDSEDQLKPKLVEALQGHRVVDIACGSGDAQTLCLTDDDTVWSW 237
Query: 87 XXXXXXXXXXXXXXXXXXPKKLNFEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSF 146
P K++ LGV SV L SG+V+ G +
Sbjct: 238 GDGDYGKLGRGGSDGCKVPMKID---SLTGLGVVKVECGSQFSVALTKSGAVYTWGKGDY 294
Query: 147 HQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVVYSSR-EVYTFGIH-AGQLG 204
H+LG H+ P + K +I + G H V + EVYT+G + GQLG
Sbjct: 295 HRLG-HGSDDHVRRPRQVQGLQGKK---VIAIATGSLHCVCCTEDGEVYTWGDNDEGQLG 350
Query: 205 HSPVTVSSASVIEPKVQATI 224
++ ++ P++ A +
Sbjct: 351 DG----TTNAIQRPRLVAAL 366
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 39/170 (22%), Positives = 67/170 (39%), Gaps = 6/170 (3%)
Query: 29 NEVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXXXX 88
EVY WG + LG G++ D P +++SL+ + V HS V+ G ++
Sbjct: 126 GEVYSWGEAEDGKLGHGNRSPCDRPRVIESLRGIEVVDVAAGGAHSACVTAAGDLYTWGK 185
Query: 89 XXXXXXXXXXXXXXXXPKKLNFEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQ 148
PK + + + +A S ++ L +V+ G + +
Sbjct: 186 GRYGRLGHSDSEDQLKPKLVEALQGHRVVDIACGS-GDAQTLCLTDDDTVWSWGDGDYGK 244
Query: 149 LGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCG-RFHSVVYSSREVYTFG 197
LG V P+ SL + ++ V CG +F + S VYT+G
Sbjct: 245 LGRGGSDGCKV---PMKIDSL-TGLGVVKVECGSQFSVALTKSGAVYTWG 290
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%)
Query: 23 VSSNQFNEVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVS 78
V + EVY WG N LG G+ P L+ +L+ + +V H++ S
Sbjct: 330 VCCTEDGEVYTWGDNDEGQLGDGTTNAIQRPRLVAALQGKKVNRVACGSAHTLAWS 385
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 27/65 (41%)
Query: 20 KIDVSSNQFNEVYIWGTNANYNLGTGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSD 79
+ V+ + VY WG + LG GS P + L+ + + H V ++
Sbjct: 275 QFSVALTKSGAVYTWGKGDYHRLGHGSDDHVRRPRQVQGLQGKKVIAIATGSLHCVCCTE 334
Query: 80 DGRVW 84
DG V+
Sbjct: 335 DGEVY 339
>pdb|3MVD|K Chain K, Crystal Structure Of The Chromatin Factor Rcc1 In Complex
With The Nucleosome Core Particle
pdb|3MVD|L Chain L, Crystal Structure Of The Chromatin Factor Rcc1 In Complex
With The Nucleosome Core Particle
Length = 423
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 45/110 (40%), Gaps = 15/110 (13%)
Query: 136 GSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLKSSQPLIGVCCGRFHSVVYS-SREVY 194
G+V VCG QLGL +P+ + + G H++V + S ++Y
Sbjct: 43 GNVLVCGNGDVGQLGLGEDILERKRLSPVA-----GIPDAVDISAGGMHNLVLTKSGDIY 97
Query: 195 TFGIH-AGQLGHSPVTVSSASVIEPKVQATIIREDLPGFIFESNRGTKHS 243
+FG + G LG T S +P + DLPG + G HS
Sbjct: 98 SFGCNDEGALGRD--TSEDGSESKPDLI------DLPGKALCISAGDSHS 139
>pdb|1A12|A Chain A, Regulator Of Chromosome Condensation (Rcc1) Of Human
pdb|1A12|B Chain B, Regulator Of Chromosome Condensation (Rcc1) Of Human
pdb|1A12|C Chain C, Regulator Of Chromosome Condensation (Rcc1) Of Human
Length = 413
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 31/129 (24%), Positives = 52/129 (40%), Gaps = 10/129 (7%)
Query: 29 NEVYIWGTNANYNLG--TGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXX 86
+VY +G N LG T + + VP ++ ++ + QV H+ ++DDGRV+
Sbjct: 78 GQVYSFGCNDEGALGRDTSVEGSEMVPGKVELQEK--VVQVSAGDSHTAALTDDGRVFLW 135
Query: 87 XXXXXXXXXXXXXXXXXXPKKLNFEKDKDKLGVAMASIS--QDHSVFLMLSGSVFVCGLN 144
P K + + +L V + ++ DH V L G ++ G
Sbjct: 136 GSFRDNNGVIGLLE----PMKKSMVPVQVQLDVPVVKVASGNDHLVMLTADGDLYTLGCG 191
Query: 145 SFHQLGLSP 153
QLG P
Sbjct: 192 EQGQLGRVP 200
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 46/197 (23%), Positives = 66/197 (33%), Gaps = 30/197 (15%)
Query: 9 MRPIDHLIRDRKIDVSSNQFNEVYIWGTNANYNLGTGSQ-QTRDVPELL------DSLKR 61
M P+ + + V+S + V + Y LG G Q Q VPEL L+R
Sbjct: 155 MVPVQVQLDVPVVKVASGNDHLVMLTADGDLYTLGCGEQGQLGRVPELFANRGGRQGLER 214
Query: 62 ASIKQVCMDK---------FHSVF--------VSDDGRVWXXXXXXXXXXXXXXXXXXXX 104
+ + M K F F +S +G V+
Sbjct: 215 LLVPKCVMLKSRGSRGHVRFQDAFCGAYFTFAISHEGHVYGFGLSNYHQLGTPGTESCFI 274
Query: 105 PKKLNFEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQLGLSPPPSHIVSPTPI 164
P+ L K+ K V + Q H+V + G + G + +LGL PT I
Sbjct: 275 PQNLTSFKNSTKSWVGFSG-GQHHTVCMDSEGKAYSLGRAEYGRLGLGEGAEEKSIPTLI 333
Query: 165 PRSSLKSSQPLIGVCCG 181
R SS V CG
Sbjct: 334 SRLPAVSS-----VACG 345
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 136 GSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLK-SSQPLIGVCCGRFHSVVYSSR-EV 193
G V+ GL+++HQLG S + P +S K S++ +G G+ H+V S +
Sbjct: 251 GHVYGFGLSNYHQLGTPGTESCFI---PQNLTSFKNSTKSWVGFSGGQHHTVCMDSEGKA 307
Query: 194 YTFG-IHAGQLG 204
Y+ G G+LG
Sbjct: 308 YSLGRAEYGRLG 319
>pdb|1I2M|B Chain B, Ran-Rcc1-So4 Complex
pdb|1I2M|D Chain D, Ran-Rcc1-So4 Complex
Length = 402
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 46/197 (23%), Positives = 66/197 (33%), Gaps = 30/197 (15%)
Query: 9 MRPIDHLIRDRKIDVSSNQFNEVYIWGTNANYNLGTGSQ-QTRDVPELL------DSLKR 61
M P+ + + V+S + V + Y LG G Q Q VPEL L+R
Sbjct: 144 MVPVQVQLDVPVVKVASGNDHLVMLTADGDLYTLGCGEQGQLGRVPELFANRGGRQGLER 203
Query: 62 ASIKQVCMDK---------FHSVF--------VSDDGRVWXXXXXXXXXXXXXXXXXXXX 104
+ + M K F F +S +G V+
Sbjct: 204 LLVPKCVMLKSRGSRGHVRFQDAFCGAYFTFAISHEGHVYGFGLSNYHQLGTPGTESCFI 263
Query: 105 PKKLNFEKDKDKLGVAMASISQDHSVFLMLSGSVFVCGLNSFHQLGLSPPPSHIVSPTPI 164
P+ L K+ K V + Q H+V + G + G + +LGL PT I
Sbjct: 264 PQNLTSFKNSTKSWVGFSG-GQHHTVCMDSEGKAYSLGRAEYGRLGLGEGAEEKSIPTLI 322
Query: 165 PRSSLKSSQPLIGVCCG 181
R SS V CG
Sbjct: 323 SRLPAVSS-----VACG 334
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 136 GSVFVCGLNSFHQLGLSPPPSHIVSPTPIPRSSLK-SSQPLIGVCCGRFHSVVYSSR-EV 193
G V+ GL+++HQLG S + P +S K S++ +G G+ H+V S +
Sbjct: 240 GHVYGFGLSNYHQLGTPGTESCFI---PQNLTSFKNSTKSWVGFSGGQHHTVCMDSEGKA 296
Query: 194 YTFG-IHAGQLG 204
Y+ G G+LG
Sbjct: 297 YSLGRAEYGRLG 308
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 31/129 (24%), Positives = 52/129 (40%), Gaps = 10/129 (7%)
Query: 29 NEVYIWGTNANYNLG--TGSQQTRDVPELLDSLKRASIKQVCMDKFHSVFVSDDGRVWXX 86
+VY +G N LG T + + VP ++ ++ + QV H+ ++DDGRV+
Sbjct: 67 GQVYSFGCNDEGALGRDTSVEGSEMVPGKVELQEK--VVQVSAGDSHTAALTDDGRVFLW 124
Query: 87 XXXXXXXXXXXXXXXXXXPKKLNFEKDKDKLGVAMASIS--QDHSVFLMLSGSVFVCGLN 144
P K + + +L V + ++ DH V L G ++ G
Sbjct: 125 GSFRDNNGVIGLLE----PMKKSMVPVQVQLDVPVVKVASGNDHLVMLTADGDLYTLGCG 180
Query: 145 SFHQLGLSP 153
QLG P
Sbjct: 181 EQGQLGRVP 189
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
0.318 0.134 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,528,567
Number of Sequences: 62578
Number of extensions: 290172
Number of successful extensions: 666
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 622
Number of HSP's gapped (non-prelim): 53
length of query: 278
length of database: 14,973,337
effective HSP length: 98
effective length of query: 180
effective length of database: 8,840,693
effective search space: 1591324740
effective search space used: 1591324740
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)