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= psy17062
(520 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 64/220 (29%), Positives = 103/220 (46%), Gaps = 17/220 (7%)
Query: 137 VPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKF 196
VP+ LP REAE + + L + + G+ GTGKTA V+R+L+
Sbjct: 17 VPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLG 76
Query: 197 VYVE---MNALSIPEPKRAYSRILELLLNVDAP-----PEQAKAMLERHFTRPHGPCVLL 248
V V+ +NA P R S I E + V P + L + +R G +++
Sbjct: 77 VLVKPIYVNARHRETPYRVASAIAE-AVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIV 135
Query: 249 IDELDYLCNK--RQDVIYNILEYLNKPKSRLII--LCIANTMDLPERTLKGKVSSRMGLT 304
+DE+D+L + QD++Y I + R+ + + I N++ E L+ +V S +G
Sbjct: 136 LDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVE-NLEPRVKSSLGEV 194
Query: 305 RLMFKPYDHHQLQEIVQNRLK---NNNCFHPDAVQLVARL 341
L+F PY QL++I++ R + N PD V L A L
Sbjct: 195 ELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAAL 234
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%)
Query: 461 VPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLK 513
VP+ LP REAE + + L + + G+ GTGKTA V+R+L+
Sbjct: 17 VPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLE 69
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 61/202 (30%), Positives = 98/202 (48%), Gaps = 9/202 (4%)
Query: 129 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL 188
RE L +P+ LP RE + + I L + ++I G+ GTGKTA V V+ KL
Sbjct: 10 REYLLPDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKL 69
Query: 189 KQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP-PEQAKAMLERHF---TRPHGP 244
++ KF +V +N I P R + +LE L+V P + A L R R +G
Sbjct: 70 HKKFLGKFKHVYINTRQIDTPYRVLADLLE-SLDVKVPFTGLSIAELYRRLVKAVRDYGS 128
Query: 245 -CVLLIDELDYLCNKRQDVIYNILEYLNKP--KSRLIILCIANTMDLPERTLKGKVSSRM 301
V+++DE+D K D I L +N KS++ + I N + + L +V S +
Sbjct: 129 QVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVD-LLDPRVKSSL 187
Query: 302 GLTRLMFKPYDHHQLQEIVQNR 323
++F PY+ +L++I+ R
Sbjct: 188 SEEEIIFPPYNAEELEDILTKR 209
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 35/68 (51%)
Query: 453 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL 512
RE L +P+ LP RE + + I L + ++I G+ GTGKTA V V+ KL
Sbjct: 10 REYLLPDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKL 69
Query: 513 KQEIGDKF 520
++ KF
Sbjct: 70 HKKFLGKF 77
>pdb|1FNN|A Chain A, Crystal Structure Of Cdc6p From Pyrobaculum Aerophilum
pdb|1FNN|B Chain B, Crystal Structure Of Cdc6p From Pyrobaculum Aerophilum
Length = 389
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 43/186 (23%), Positives = 70/186 (37%), Gaps = 29/186 (15%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVE--------------MNALSIPEPKRAYSRI 216
G PGTGKT T+ + K + +FVY+ +L+IP P+R SR
Sbjct: 51 GRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSR- 109
Query: 217 LELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSR 276
++ A+L H L++D+ L + + +K +
Sbjct: 110 -----------DEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAF 158
Query: 277 LIILCIANTMDLPERTLKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLKNN---NCFHPD 333
I L I D L MG + F PY Q+ +I+ +R K + D
Sbjct: 159 RIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSED 218
Query: 334 AVQLVA 339
+Q++A
Sbjct: 219 ILQMIA 224
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 33/134 (24%), Positives = 55/134 (41%), Gaps = 34/134 (25%)
Query: 163 TTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYV---EMNALSIPEPKRAYSRILEL 219
T + ++G PG GKT AV E G F+ V E+ + + E +RA ++ +
Sbjct: 43 TPAGVLLAGPPGCGKTLLAKAV----ANESGLNFISVKGPELLNMYVGESERAVRQVFQR 98
Query: 220 LLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQD--------VIYNILEYLN 271
N PCV+ DE+D LC +R D V+ +L ++
Sbjct: 99 AKN-------------------SAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMD 139
Query: 272 KPKSRLIILCIANT 285
++R + +A T
Sbjct: 140 GLEARQQVFIMAAT 153
>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 516
Score = 37.0 bits (84), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 30/127 (23%), Positives = 58/127 (45%), Gaps = 20/127 (15%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPP- 227
+ G PG GKT H V ++L +I +E NA + + + L N+
Sbjct: 82 LYGPPGIGKTTAAHLVAQELGYDI------LEQNASDVRSKTLLNAGVKNALDNMSVVGY 135
Query: 228 ----EQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILCIA 283
E+A+ + +HF V+++DE+D + + + + ++ K + LI++C
Sbjct: 136 FKHNEEAQNLNGKHF-------VIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILIC-- 186
Query: 284 NTMDLPE 290
N +LP+
Sbjct: 187 NERNLPK 193
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 20/93 (21%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ + G PG GKT AV + + +P + S +E+ + V A
Sbjct: 76 VLLVGPPGVGKTHLARAVAGEAR----------------VPFITASGSDFVEMFVGVGA- 118
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR 259
+ + + E + H PC++ IDE+D + KR
Sbjct: 119 -ARVRDLFET--AKRHAPCIVFIDEIDAVGRKR 148
>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 499
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 20/93 (21%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ + G PG GKT AV + + +P + S +E+ + V A
Sbjct: 67 VLLVGPPGVGKTHLARAVAGEAR----------------VPFITASGSDFVEMFVGVGAA 110
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR 259
+ + + E + H PC++ IDE+D + KR
Sbjct: 111 --RVRDLFET--AKRHAPCIVFIDEIDAVGRKR 139
>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 508
Score = 32.3 bits (72), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 20/93 (21%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ + G PG GKT AV + + +P + S +E+ + V A
Sbjct: 76 VLLVGPPGVGKTHLARAVAGEAR----------------VPFITASGSDFVEMFVGVGAA 119
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR 259
+ + + E + H PC++ IDE+D + KR
Sbjct: 120 --RVRDLFET--AKRHAPCIVFIDEIDAVGRKR 148
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 32.3 bits (72), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 20/93 (21%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ + G PG GKT AV + + +P + S +E+ + V A
Sbjct: 52 VLLVGPPGVGKTHLARAVAGEAR----------------VPFITASGSDFVEMFVGVGA- 94
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR 259
+ + + E + H PC++ IDE+D + KR
Sbjct: 95 -ARVRDLFET--AKRHAPCIVFIDEIDAVGRKR 124
>pdb|2QBY|B Chain B, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 384
Score = 32.3 bits (72), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 46/76 (60%), Gaps = 4/76 (5%)
Query: 245 CVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPERTLKGKVSSRMGLT 304
++ +DE+D L +R I +L L + + + ++ I+N +++ + ++ +V S +G +
Sbjct: 135 AIIYLDEVDTLVKRRGGDI--VLYQLLRSDANISVIMISNDINVRD-YMEPRVLSSLGPS 191
Query: 305 RLMFKPYDHHQLQEIV 320
++FKPYD QL+ I+
Sbjct: 192 -VIFKPYDAEQLKFIL 206
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 32.0 bits (71), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 41/93 (44%), Gaps = 20/93 (21%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ + G PGTGKT A+ + K +P + S +E+ + V A
Sbjct: 48 VLMVGPPGTGKTLLAKAIAGEAK----------------VPFFTISGSDFVEMFVGVGA- 90
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR 259
+ + M E+ + PC++ IDE+D + +R
Sbjct: 91 -SRVRDMFEQ--AKKAAPCIIFIDEIDAVGRQR 120
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 32.0 bits (71), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 41/94 (43%), Gaps = 22/94 (23%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ + G PGTGKT AV IG F++ S I++ +
Sbjct: 218 VLLYGPPGTGKTLLAKAVA----ATIGANFIF------------SPASGIVDKYIG---- 257
Query: 227 PEQAKAMLERH-FTRPHGPCVLLIDELDYLCNKR 259
E A+ + E + + H PC++ +DE+D + +R
Sbjct: 258 -ESARIIREMFAYAKEHEPCIIFMDEVDAIGGRR 290
>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2
pdb|2CHG|B Chain B, Replication Factor C Domains 1 And 2
pdb|2CHG|C Chain C, Replication Factor C Domains 1 And 2
pdb|2CHG|D Chain D, Replication Factor C Domains 1 And 2
Length = 226
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/38 (52%), Positives = 23/38 (60%), Gaps = 3/38 (7%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQE-IGDKFVYVEMNA 203
+ SG PGTGKTAT A+ R L E D F +EMNA
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDNF--IEMNA 76
>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHQ|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHQ|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHV|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHV|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|D Chain D, Replication Factor C Adpnp Complex
pdb|2CHV|E Chain E, Replication Factor C Adpnp Complex
pdb|2CHV|F Chain F, Replication Factor C Adpnp Complex
Length = 319
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/38 (52%), Positives = 23/38 (60%), Gaps = 3/38 (7%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQE-IGDKFVYVEMNA 203
+ SG PGTGKTAT A+ R L E D F +EMNA
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDNF--IEMNA 76
>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 340
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 49/115 (42%), Gaps = 16/115 (13%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ G PGTGKT+T+ A+ R++ + V +E+NA R +D
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGKNYSNMV-LELNA----SDDRG----------IDVV 93
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILC 281
Q K G ++++DE D + N Q+ + ++E K +R +L
Sbjct: 94 RNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTK-NTRFCVLA 147
>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 323
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 49/118 (41%), Gaps = 21/118 (17%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFV--YVEMNALSIPEPKRAYSRILELLLNVD 224
M ISG+PG GKT +VH + +L +G + +E+NA R +D
Sbjct: 45 MIISGMPGIGKTTSVHCLAHEL---LGRSYADGVLELNA----SDDRG----------ID 87
Query: 225 APPEQAKAMLERHFTRPHGP-CVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILC 281
Q K ++ P G ++++DE D + Q + +E L +R C
Sbjct: 88 VVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTME-LYSNSTRFAFAC 144
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 491 MYISGVPGTGKTATVHAVMRKL 512
M ISG+PG GKT +VH + +L
Sbjct: 45 MIISGMPGIGKTTSVHCLAHEL 66
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 43/187 (22%), Positives = 80/187 (42%), Gaps = 37/187 (19%)
Query: 156 LSKISQSTTG-CMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYS 214
+ K+++S G + ++G PG GKT+ ++ + L G KFV + + + R +
Sbjct: 99 VQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL----GRKFVRISLGGVRDESEIRGHR 154
Query: 215 RILELLLNVDAPPEQ-AKAMLERHFTRPHGPCVLLIDELDYLCNK-RQDVIYNILEYLNK 272
R V A P + + M + P V L+DE+D + + R D +LE L+
Sbjct: 155 RTY-----VGAMPGRIIQGMKKAGKLNP----VFLLDEIDKMSSDFRGDPSSAMLEVLDP 205
Query: 273 PK---------------SRLIILCIANTMDLPERTLKGKVSSRMGLTRLMFKPYDHHQLQ 317
+ S+++ + AN + T+ G + RM + + Y +
Sbjct: 206 EQNSSFSDHYIEETFDLSKVLFIATANNL----ATIPGPLRDRMEIINIA--GYTEIEKL 259
Query: 318 EIVQNRL 324
EIV++ L
Sbjct: 260 EIVKDHL 266
>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex
Length = 162
Score = 29.3 bits (64), Expect = 5.4, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 60 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREXRDAIILIFANKQDLPDA 116
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 117 XKPHEIQEKLGLTRI 131
>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 353
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 58/125 (46%), Gaps = 25/125 (20%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA-----LSIPEPK-RAYSRILELL 220
M G PGTGKT+T+ A+ ++L K +E+NA +SI K + ++R
Sbjct: 61 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFAR----- 115
Query: 221 LNVDAPPEQAKAMLERHFTRPHGPC----VLLIDELDYLCNKRQDVIYNILEYLNKPKSR 276
L V P +K LE + PC ++++DE D + Q + +E + +R
Sbjct: 116 LTVSKP---SKHDLENY------PCPPYKIIILDEADSMTADAQSALRRTMETYSGV-TR 165
Query: 277 LIILC 281
++C
Sbjct: 166 FCLIC 170
>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A
Specific Effector, Jip4
pdb|2W83|B Chain B, Crystal Structure Of The Arf6 Gtpase In Complex With A
Specific Effector, Jip4
pdb|2W83|E Chain E, Crystal Structure Of The Arf6 Gtpase In Complex With A
Specific Effector, Jip4
Length = 165
Score = 29.3 bits (64), Expect = 5.9, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 63 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREMRDAIILIFANKQDLPDA 119
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 120 MKPHEIQEKLGLTRI 134
>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex
pdb|4FME|F Chain F, Espg-Rab1-Arf6 Complex
Length = 160
Score = 29.3 bits (64), Expect = 6.0, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 60 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREMRDAIILIFANKQDLPDA 116
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 117 MKPHEIQEKLGLTRI 131
>pdb|3G0T|A Chain A, Crystal Structure Of Putative Aspartate Aminotransferase
(Np_905498.1) From Porphyromonas Gingivalis W83 At 1.75
A Resolution
pdb|3G0T|B Chain B, Crystal Structure Of Putative Aspartate Aminotransferase
(Np_905498.1) From Porphyromonas Gingivalis W83 At 1.75
A Resolution
Length = 437
Score = 29.3 bits (64), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 160 SQSTTGCMYISGVPGT-GKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILE 218
+ T C GVPG + ++KL++ + +Y ++ L PE K+ SR +
Sbjct: 41 ATGTKFCRXEXGVPGLPAPQIGIETEIQKLREGVAS--IYPNLDGL--PELKQEASRFAK 96
Query: 219 LLLNVDAP 226
L +N+D P
Sbjct: 97 LFVNIDIP 104
>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like
Protein 1) Complex
pdb|3VHX|C Chain C, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like
Protein 1) Complex
pdb|3VHX|E Chain E, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like
Protein 1) Complex
pdb|3VHX|G Chain G, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like
Protein 1) Complex
Length = 172
Score = 29.3 bits (64), Expect = 6.3, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 62 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREMRDAIILIFANKQDLPDA 118
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 119 MKPHEIQEKLGLTRI 133
>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp
pdb|3N5C|B Chain B, Crystal Structure Of Arf6delta13 Complexed With Gdp
Length = 162
Score = 28.9 bits (63), Expect = 6.5, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 60 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREMRDAIILIFANKQDLPDA 116
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 117 MKPHEIQEKLGLTRI 131
>pdb|3LVQ|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In
Trans State
pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In
Trans State Soaked With Calcium
Length = 497
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 382 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREMRDAIILIFANKQDLPDA 438
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 439 MKPHEIQEKLGLTRI 453
>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By
Human Arf6-Gtp
pdb|2A5F|A Chain A, Cholera Toxin A1 Subunit Bound To Its Substrate, Nad+, And
Its Human Protein Activator, Arf6
pdb|2J5X|A Chain A, Structure Of The Small G Protein Arf6 In Complex With
Gtpgammas
pdb|2J5X|B Chain B, Structure Of The Small G Protein Arf6 In Complex With
Gtpgammas
Length = 175
Score = 28.9 bits (63), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 73 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREMRDAIILIFANKQDLPDA 129
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 130 MKPHEIQEKLGLTRI 144
>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp
Length = 174
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 72 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREMRDAIILIFANKQDLPDA 128
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 129 MKPHEIQEKLGLTRI 143
>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l)
Length = 175
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 234 LERHFTRPHGPCVLLID--ELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPER 291
L RH+ + ++D + D + RQ+ ++ I+ ++ IIL AN DLP+
Sbjct: 73 LWRHYYTGTQGLIFVVDCADRDRIDEARQE-LHRIIN--DREMRDAIILIFANKQDLPDA 129
Query: 292 TLKGKVSSRMGLTRL 306
++ ++GLTR+
Sbjct: 130 MKPHEIQEKLGLTRI 144
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
0.315 0.129 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,015,151
Number of Sequences: 62578
Number of extensions: 447380
Number of successful extensions: 1116
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1083
Number of HSP's gapped (non-prelim): 46
length of query: 520
length of database: 14,973,337
effective HSP length: 103
effective length of query: 417
effective length of database: 8,527,803
effective search space: 3556093851
effective search space used: 3556093851
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)