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= 024000
(274 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YPT|A Chain A, Crystal Structure Of The Human Nuclear Membrane Zinc
Metalloprotease Zmpste24 Mutant (E336a) In Complex With
A Synthetic Csim Tetrapeptide From The C-Terminus Of
Prelamin A
pdb|2YPT|B Chain B, Crystal Structure Of The Human Nuclear Membrane Zinc
Metalloprotease Zmpste24 Mutant (E336a) In Complex With
A Synthetic Csim Tetrapeptide From The C-Terminus Of
Prelamin A
pdb|2YPT|D Chain D, Crystal Structure Of The Human Nuclear Membrane Zinc
Metalloprotease Zmpste24 Mutant (E336a) In Complex With
A Synthetic Csim Tetrapeptide From The C-Terminus Of
Prelamin A
pdb|2YPT|E Chain E, Crystal Structure Of The Human Nuclear Membrane Zinc
Metalloprotease Zmpste24 Mutant (E336a) In Complex With
A Synthetic Csim Tetrapeptide From The C-Terminus Of
Prelamin A
Length = 482
Score = 236 bits (603), Expect = 8e-63, Method: Compositional matrix adjust.
Identities = 127/265 (47%), Positives = 171/265 (64%), Gaps = 1/265 (0%)
Query: 8 AVVGFMILMYFFETYLDLRQHXXXXXXXXXX-TLEGVISQEKFEKSRGYSLDKSHFHFVH 66
AV+ F +Y +ET+L RQ L ++ E FEKSR Y LDKS F F
Sbjct: 22 AVLLFSWTVYLWETFLAQRQRRIYKTTTHVPPELGQIMDSETFEKSRLYQLDKSTFSFWS 81
Query: 67 EFVTILMDSAILLFRILPWFWKKSGNFLVLVGLDAENEILHTLSFLAGVMLWSQLTDLPF 126
+ + ILLF +P+ W+ SG F G E EI +L FL L+S L LP+
Sbjct: 82 GLYSETEGTLILLFGGIPYLWRLSGRFCGYAGFGPEYEITQSLVFLLLATLFSALAGLPW 141
Query: 127 SLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPYLAIYLW 186
SLY+TFVIE +HGFN+QT+ F +D IK ++ + P+ S ++ I++ GG Y IY W
Sbjct: 142 SLYNTFVIEEKHGFNQQTLGFFMKDAIKKFVVTQCILLPVSSLLLYIIKIGGDYFFIYAW 201
Query: 187 AFMFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRS 246
F V+SLV++T+Y IAPLF+KFTPLPEG+L+E+IE +A S+ FPL K++VV+GS RS
Sbjct: 202 LFTLVVSLVLVTIYADYIAPLFDKFTPLPEGKLKEEIEVMAKSIDFPLTKVYVVEGSKRS 261
Query: 247 SHSNAYMYGFFKNKRIVLYDTLIQQ 271
SHSNAY YGFFKNKRIVL+DTL+++
Sbjct: 262 SHSNAYFYGFFKNKRIVLFDTLLEE 286
>pdb|4AW6|A Chain A, Crystal Structure Of The Human Nuclear Membrane Zinc
Metalloprotease Zmpste24 (Face1)
pdb|4AW6|B Chain B, Crystal Structure Of The Human Nuclear Membrane Zinc
Metalloprotease Zmpste24 (Face1)
pdb|4AW6|D Chain D, Crystal Structure Of The Human Nuclear Membrane Zinc
Metalloprotease Zmpste24 (Face1)
pdb|4AW6|E Chain E, Crystal Structure Of The Human Nuclear Membrane Zinc
Metalloprotease Zmpste24 (Face1)
Length = 482
Score = 236 bits (603), Expect = 8e-63, Method: Compositional matrix adjust.
Identities = 127/265 (47%), Positives = 171/265 (64%), Gaps = 1/265 (0%)
Query: 8 AVVGFMILMYFFETYLDLRQHXXXXXXXXXX-TLEGVISQEKFEKSRGYSLDKSHFHFVH 66
AV+ F +Y +ET+L RQ L ++ E FEKSR Y LDKS F F
Sbjct: 22 AVLLFSWTVYLWETFLAQRQRRIYKTTTHVPPELGQIMDSETFEKSRLYQLDKSTFSFWS 81
Query: 67 EFVTILMDSAILLFRILPWFWKKSGNFLVLVGLDAENEILHTLSFLAGVMLWSQLTDLPF 126
+ + ILLF +P+ W+ SG F G E EI +L FL L+S L LP+
Sbjct: 82 GLYSETEGTLILLFGGIPYLWRLSGRFCGYAGFGPEYEITQSLVFLLLATLFSALAGLPW 141
Query: 127 SLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPYLAIYLW 186
SLY+TFVIE +HGFN+QT+ F +D IK ++ + P+ S ++ I++ GG Y IY W
Sbjct: 142 SLYNTFVIEEKHGFNQQTLGFFMKDAIKKFVVTQCILLPVSSLLLYIIKIGGDYFFIYAW 201
Query: 187 AFMFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRS 246
F V+SLV++T+Y IAPLF+KFTPLPEG+L+E+IE +A S+ FPL K++VV+GS RS
Sbjct: 202 LFTLVVSLVLVTIYADYIAPLFDKFTPLPEGKLKEEIEVMAKSIDFPLTKVYVVEGSKRS 261
Query: 247 SHSNAYMYGFFKNKRIVLYDTLIQQ 271
SHSNAY YGFFKNKRIVL+DTL+++
Sbjct: 262 SHSNAYFYGFFKNKRIVLFDTLLEE 286
>pdb|4IL3|A Chain A, Crystal Structure Of S. Mikatae Ste24p
pdb|4IL3|B Chain B, Crystal Structure Of S. Mikatae Ste24p
Length = 461
Score = 185 bits (470), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 108/272 (39%), Positives = 148/272 (54%), Gaps = 4/272 (1%)
Query: 4 PYMEAVVGFMILMYFFETYLDLRQHXXXXXXXXXXTLEGVISQEKFEKSRGYSLDKSHFH 63
P+ + F I + FE+YL RQ+ LE I E F KSR YS K+ F
Sbjct: 14 PWKLIISAFSIAQFSFESYLTYRQYQKLSETKLPPVLEDEIDDETFHKSRNYSRAKAKFS 73
Query: 64 FVHEFVTILMDSAILLFRILPWFWKKS---GNFLVLVGLDAENEILHTLSFLAGVMLWSQ 120
+ + + + P W + N ++ V + + +L FL + S
Sbjct: 74 IFSDIYNLAQKLVFIKYDFFPKIWHMAVTLSNAVLPVRFHMVSTVAQSLCFLGLLSSMST 133
Query: 121 LTDLPFSLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPY 180
L DLP S YS FV+E + GFNK T+ L+ DMIK + LA +G PI+ + I K
Sbjct: 134 LVDLPLSYYSHFVLEEKFGFNKLTVKLWITDMIKSLTLAYAIGGPILYLFLKIFDKFPTD 193
Query: 181 LAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLASSLKFPLKKLFVV 240
Y+ F+FV+ ++ MT+ PV I PLFNKFTPL +GEL++ IE LA + FPL K+FV+
Sbjct: 194 FLWYIMVFLFVVQILAMTIIPVFIMPLFNKFTPLEDGELKKSIESLADRVGFPLDKIFVI 253
Query: 241 DGSTRSSHSNAYMYGF-FKNKRIVLYDTLIQQ 271
DGS RSSHSNAY G F +KRIVL+DTL+
Sbjct: 254 DGSKRSSHSNAYFTGLPFTSKRIVLFDTLVNS 285
>pdb|1H79|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dttp
pdb|1H7A|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Datp
pdb|1H7B|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases,
Native Nrdd
pdb|1H78|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dctp.
pdb|1HK8|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dgtp
Length = 605
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 95 VLVGLDAENEILHTLSFLAGVMLWSQLTDLPFSLYST 131
+LVG D EIL ++ A + W++ T FSLYST
Sbjct: 409 ILVGRDIGREILTKMN--AHLKQWTERTGFAFSLYST 443
>pdb|2HQD|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
Of The Putative Proton Relay Pathway
Length = 1053
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 52/112 (46%), Gaps = 33/112 (29%)
Query: 65 VHEFVTILMDSAILLFRILPWFWKKSGNFLVLVGLDAENEILHTLSFLAGVMLWSQLTDL 124
+HE V L+++ IL+F ++ F + NF ++ T++ +
Sbjct: 337 IHEVVKTLVEAIILVFLVMYLFLQ---NF--------RATLIPTIA-------------V 372
Query: 125 PFSLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQK 176
P L TF + A GF+ T+ +F GM+LAI L +V A I++V+
Sbjct: 373 PVVLLGTFAVLAAFGFSINTLTMF------GMVLAIGL---LVDAAIVVVEN 415
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
0.330 0.144 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,438,169
Number of Sequences: 62578
Number of extensions: 281133
Number of successful extensions: 631
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 615
Number of HSP's gapped (non-prelim): 15
length of query: 274
length of database: 14,973,337
effective HSP length: 97
effective length of query: 177
effective length of database: 8,903,271
effective search space: 1575878967
effective search space used: 1575878967
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (24.3 bits)