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= psy9998
(288 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LHA|A Chain A, Crystal Structure Of Mouse Vps26b(R240sG241AE242S) IN
SPACEGROUP P41 21 2
pdb|3LHA|B Chain B, Crystal Structure Of Mouse Vps26b(R240sG241AE242S) IN
SPACEGROUP P41 21 2
Length = 340
Score = 271 bits (694), Expect = 3e-73, Method: Compositional matrix adjust.
Identities = 146/277 (52%), Positives = 183/277 (66%), Gaps = 64/277 (23%)
Query: 6 FGQSADIEIKLDGTDTRKLADIKSDDGKKERFYLYYDGESVTGQVNIVLKKHGSKLEHQG 65
GQS ++EI L+ ++RK A+ K++DGKKE+++L+YDGE+V+G+V++ LK +LEHQG
Sbjct: 10 MGQSVEVEILLNDAESRKRAEHKTEDGKKEKYFLFYDGETVSGKVSLSLKNPNKRLEHQG 69
Query: 66 IKIEFIGQIELYYDRGNHHEFVSLVKELARPGELIQNTTYKFEFLNVEKPYESYTGSNVF 125
IKIEFIGQIELYYDRGNHHEFVSLVK+LARPGE+ Q+ + FEF +VEKPYESYT
Sbjct: 70 IKIEFIGQIELYYDRGNHHEFVSLVKDLARPGEITQSQAFDFEFTHVEKPYESYT----- 124
Query: 126 TPRPNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKKFSVKYFLNLV 185
G+++ +R FL A R +N
Sbjct: 125 -------------------------GQNVKLRYFLR----ATISRRLN------------ 143
Query: 186 LMDEEDRRYFKQQVFTPNLIKELDIIVHTLSSYPEMNSPIKMEVGIEDCLHIEFEYNKCN 245
+++KE+DI+VHTLS+YPE+NS IKMEVGIEDCLHIEFEYNK
Sbjct: 144 -----------------DVVKEMDIVVHTLSTYPELNSSIKMEVGIEDCLHIEFEYNKSK 186
Query: 246 TWNLKDVIVGKIYFLLVRIKIKHMEIAIIKRETTGTG 282
++LKDVIVGKIYFL V IKIKHMEI IIKRETTGTG
Sbjct: 187 -YHLKDVIVGKIYFLSVEIKIKHMEIDIIKRETTGTG 222
Score = 134 bits (337), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 64/95 (67%), Positives = 79/95 (83%), Gaps = 2/95 (2%)
Query: 129 PNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKKFSVKYFLNLVLMD 188
PNV++EN+TIAKYEIMDGAPVRG SIPIR+FLAGY+L PTMRDINKKFSV+Y+LNLVL+D
Sbjct: 223 PNVYHENDTIAKYEIMDGAPVRGSSIPIRLFLAGYELTPTMRDINKKFSVRYYLNLVLID 282
Query: 189 EEDRRYFKQQVFTPNLIKELDIIVHTLSSYPEMNS 223
EE+RRYFKQQ L ++ DI+ ++S + S
Sbjct: 283 EEERRYFKQQEVV--LWRKGDIVRKSMSHQAAIAS 315
>pdb|3LH8|A Chain A, Crystal Structure Of Mouse Vps26b In Spacegroup P41 21 2
pdb|3LH8|B Chain B, Crystal Structure Of Mouse Vps26b In Spacegroup P41 21 2
pdb|3LH9|A Chain A, Crystal Structure Of Mouse Vps26b(L197sR199E) IN
SPACEGROUP P41 21 2
pdb|3LH9|B Chain B, Crystal Structure Of Mouse Vps26b(L197sR199E) IN
SPACEGROUP P41 21 2
Length = 340
Score = 271 bits (693), Expect = 3e-73, Method: Compositional matrix adjust.
Identities = 146/277 (52%), Positives = 183/277 (66%), Gaps = 64/277 (23%)
Query: 6 FGQSADIEIKLDGTDTRKLADIKSDDGKKERFYLYYDGESVTGQVNIVLKKHGSKLEHQG 65
GQS ++EI L+ ++RK A+ K++DGKKE+++L+YDGE+V+G+V++ LK +LEHQG
Sbjct: 10 MGQSVEVEILLNDAESRKRAEHKTEDGKKEKYFLFYDGETVSGKVSLSLKNPNKRLEHQG 69
Query: 66 IKIEFIGQIELYYDRGNHHEFVSLVKELARPGELIQNTTYKFEFLNVEKPYESYTGSNVF 125
IKIEFIGQIELYYDRGNHHEFVSLVK+LARPGE+ Q+ + FEF +VEKPYESYT
Sbjct: 70 IKIEFIGQIELYYDRGNHHEFVSLVKDLARPGEITQSQAFDFEFTHVEKPYESYT----- 124
Query: 126 TPRPNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKKFSVKYFLNLV 185
G+++ +R FL A R +N
Sbjct: 125 -------------------------GQNVKLRYFLR----ATISRRLN------------ 143
Query: 186 LMDEEDRRYFKQQVFTPNLIKELDIIVHTLSSYPEMNSPIKMEVGIEDCLHIEFEYNKCN 245
+++KE+DI+VHTLS+YPE+NS IKMEVGIEDCLHIEFEYNK
Sbjct: 144 -----------------DVVKEMDIVVHTLSTYPELNSSIKMEVGIEDCLHIEFEYNKSK 186
Query: 246 TWNLKDVIVGKIYFLLVRIKIKHMEIAIIKRETTGTG 282
++LKDVIVGKIYFL V IKIKHMEI IIKRETTGTG
Sbjct: 187 -YHLKDVIVGKIYFLSVEIKIKHMEIDIIKRETTGTG 222
Score = 135 bits (341), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 65/95 (68%), Positives = 80/95 (84%), Gaps = 2/95 (2%)
Query: 129 PNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKKFSVKYFLNLVLMD 188
PNV++EN+TIAKYEIMDGAPVRGESIPIR+FLAGY+L PTMRDINKKFSV+Y+LNLVL+D
Sbjct: 223 PNVYHENDTIAKYEIMDGAPVRGESIPIRLFLAGYELTPTMRDINKKFSVRYYLNLVLID 282
Query: 189 EEDRRYFKQQVFTPNLIKELDIIVHTLSSYPEMNS 223
EE+RRYFKQQ L ++ DI+ ++S + S
Sbjct: 283 EEERRYFKQQEVV--LWRKGDIVRKSMSHQAAIAS 315
>pdb|2R51|A Chain A, Crystal Structure Of Mouse Vps26b
Length = 340
Score = 269 bits (688), Expect = 1e-72, Method: Compositional matrix adjust.
Identities = 146/276 (52%), Positives = 182/276 (65%), Gaps = 64/276 (23%)
Query: 7 GQSADIEIKLDGTDTRKLADIKSDDGKKERFYLYYDGESVTGQVNIVLKKHGSKLEHQGI 66
GQS ++EI L+ ++RK A+ K++DGKKE+++L+YDGE+V+G+V++ LK +LEHQGI
Sbjct: 11 GQSVEVEILLNDAESRKRAEHKTEDGKKEKYFLFYDGETVSGKVSLSLKNPNKRLEHQGI 70
Query: 67 KIEFIGQIELYYDRGNHHEFVSLVKELARPGELIQNTTYKFEFLNVEKPYESYTGSNVFT 126
KIEFIGQIELYYDRGNHHEFVSLVK+LARPGE+ Q+ + FEF +VEKPYESYT
Sbjct: 71 KIEFIGQIELYYDRGNHHEFVSLVKDLARPGEITQSQAFDFEFTHVEKPYESYT------ 124
Query: 127 PRPNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKKFSVKYFLNLVL 186
G+++ +R FL A R +N
Sbjct: 125 ------------------------GQNVKLRYFLR----ATISRRLN------------- 143
Query: 187 MDEEDRRYFKQQVFTPNLIKELDIIVHTLSSYPEMNSPIKMEVGIEDCLHIEFEYNKCNT 246
+++KE DI+VHTLS+YPE+NS IK EVGIEDCLHIEFEYNK
Sbjct: 144 ----------------DVVKEXDIVVHTLSTYPELNSSIKXEVGIEDCLHIEFEYNKSK- 186
Query: 247 WNLKDVIVGKIYFLLVRIKIKHMEIAIIKRETTGTG 282
++LKDVIVGKIYFLLVRIKIKH EI IIKRETTGTG
Sbjct: 187 YHLKDVIVGKIYFLLVRIKIKHXEIDIIKRETTGTG 222
Score = 129 bits (325), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 63/95 (66%), Positives = 77/95 (81%), Gaps = 2/95 (2%)
Query: 129 PNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKKFSVKYFLNLVLMD 188
PNV++EN+TIAKYEI DGAPVRGESIPIR+FLAGY+L PT RDINKKFSV+Y+LNLVL+D
Sbjct: 223 PNVYHENDTIAKYEIXDGAPVRGESIPIRLFLAGYELTPTXRDINKKFSVRYYLNLVLID 282
Query: 189 EEDRRYFKQQVFTPNLIKELDIIVHTLSSYPEMNS 223
EE+RRYFKQQ L ++ DI+ + S + S
Sbjct: 283 EEERRYFKQQEVV--LWRKGDIVRKSXSHQAAIAS 315
>pdb|2FAU|A Chain A, Crystal Structure Of Human Vps26
Length = 341
Score = 249 bits (637), Expect = 9e-67, Method: Compositional matrix adjust.
Identities = 138/284 (48%), Positives = 182/284 (64%), Gaps = 66/284 (23%)
Query: 1 MSFFG--FGQSADIEIKLDGTDTRKLADIKSDDGKKERFYLYYDGESVTGQVNIVLKKHG 58
MSF G FG +I+I L+ +TRK+A++K++DGK E+ YL+YDGESV+G+VN+ K+ G
Sbjct: 3 MSFLGGFFGPIXEIDIVLNDGETRKMAEMKTEDGKVEKHYLFYDGESVSGKVNLAFKQPG 62
Query: 59 SKLEHQGIKIEFIGQIELYYDRGNHHEFVSLVKELARPGELIQNTTYKFEFLNVEKPYES 118
+LEHQGI+IEF+GQIEL+ D+ N HEFV+LVKELA PGEL Q+ +Y FEF+ VEKPYES
Sbjct: 63 KRLEHQGIRIEFVGQIELFNDKSNTHEFVNLVKELALPGELTQSRSYDFEFMQVEKPYES 122
Query: 119 YTGSNVFTPRPNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKKFSV 178
Y G+NV +
Sbjct: 123 YIGANV----------------------------------------------------RL 130
Query: 179 KYFLNLVLMDEEDRRYFKQQVFTPNLIKELDIIVHTLSSYPEMNSPIKMEVGIEDCLHIE 238
+YFL + ++ RR +L+KE D+IVH L++YP++N+ IKMEVGIED LHIE
Sbjct: 131 RYFLKVTIV----RR-------LTDLVKEYDLIVHQLATYPDVNNSIKMEVGIEDXLHIE 179
Query: 239 FEYNKCNTWNLKDVIVGKIYFLLVRIKIKHMEIAIIKRETTGTG 282
FEYNK ++LKDVIVGKIYFLLVRIKI+HME+ +IK+E TG G
Sbjct: 180 FEYNKSK-YHLKDVIVGKIYFLLVRIKIQHMELQLIKKEITGIG 222
Score = 127 bits (318), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 58/70 (82%), Positives = 64/70 (91%)
Query: 129 PNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKKFSVKYFLNLVLMD 188
P+ E ETIAKYEIMDGAPV+GESIPIR+FLAGYD PTMRD+NKKFSV+YFLNLVL+D
Sbjct: 223 PSTTTETETIAKYEIMDGAPVKGESIPIRLFLAGYDPTPTMRDVNKKFSVRYFLNLVLVD 282
Query: 189 EEDRRYFKQQ 198
EEDRRYFKQQ
Sbjct: 283 EEDRRYFKQQ 292
>pdb|3IXZ|B Chain B, Pig Gastric H+K+-Atpase Complexed With Aluminium Fluoride
pdb|2XZB|B Chain B, Pig Gastric H,K-Atpase With Bound Bef And Sch28080
pdb|2YN9|B Chain B, Cryo-em Structure Of Gastric H+,k+-atpase With Bound
Rubidium
Length = 290
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 28/68 (41%), Gaps = 1/68 (1%)
Query: 116 YESYTGSNVFTPRPNVFNENETIAKYEIMDGAPVRGESIPIRVFLAGYDLAPTMRDINKK 175
Y+ S T RP+V+ E Y + D G + + FLAGY A IN
Sbjct: 73 YQDQLKSPGVTLRPDVYGEKGLDISYNVSDSTTWAGLAHTLHRFLAGYSPAAQEGSINCT 132
Query: 176 FSVKYFLN 183
S KYF
Sbjct: 133 -SEKYFFQ 139
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 27/62 (43%), Gaps = 5/62 (8%)
Query: 31 DGKKERFYLYYDGESVTGQVNIVLKKHGSKLEHQGIKIEFIGQIELYYDRGNHHEFVSLV 90
DG +E FYLY DG S N L H IK+ Q ELY + G+ + +
Sbjct: 290 DGSREGFYLYPDGRS----YNPDLTGLCEPTPHDHIKVT-QEQYELYCEMGSTFQLCKIC 344
Query: 91 KE 92
E
Sbjct: 345 AE 346
>pdb|4FXG|A Chain A, Complement C4 In Complex With Masp-2
pdb|4FXG|D Chain D, Complement C4 In Complex With Masp-2
pdb|4FXK|A Chain A, Human Complement C4
Length = 656
Score = 27.3 bits (59), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 27/127 (21%), Positives = 51/127 (40%), Gaps = 11/127 (8%)
Query: 151 GESIPIRVFLAGYDLAPTMRDINKKFSVKYFLNLVLMDEEDRRYFKQQVFTPNLIKELDI 210
G+ + RVF + P+ I +++ + R K++V+ P+ I + D
Sbjct: 134 GQRVRYRVFALDQKMRPSTDTIT----------VMVENSHGLRVRKKEVYMPSSIFQDDF 183
Query: 211 IVHTLSSYPEMNSPIKMEVGIEDCLHIEFEYNKCNTWNLK-DVIVGKIYFLLVRIKIKHM 269
++ +S + G+E +FE K N + + GK Y L V + M
Sbjct: 184 VIPDISEPGTWKISARFSDGLESNSSTQFEVKKYVLPNFEVKITPGKPYILTVPGHLDEM 243
Query: 270 EIAIIKR 276
++ I R
Sbjct: 244 QLDIQAR 250
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 0.141 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,159,180
Number of Sequences: 62578
Number of extensions: 407518
Number of successful extensions: 803
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 786
Number of HSP's gapped (non-prelim): 18
length of query: 288
length of database: 14,973,337
effective HSP length: 98
effective length of query: 190
effective length of database: 8,840,693
effective search space: 1679731670
effective search space used: 1679731670
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: 51 (24.3 bits)