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= 002886
(870 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3I2D|A Chain A, Crystal Structure Of S. Cerevisiae Sumo E3 Ligase Siz1
Length = 371
Score = 85.5 bits (210), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 71/275 (25%), Positives = 120/275 (43%), Gaps = 28/275 (10%)
Query: 139 VSTIMTRFYPLLKMGQILASL----EVEPGYGAFMIDFHISK---NMIQSTEEKIRLFVA 191
V TI + P K+ +++ L EV G G F +SK N++ + K RL++
Sbjct: 63 VPTIHFKESPFYKIQRLIPELVMNVEVTGGRGMCSAKFKLSKADYNLLSNPNSKHRLYLF 122
Query: 192 QTDKTETSACVISPQHVNFI--LNGKGIERRTNV--FM-DPGPQLPTNVSPMLKYGT--- 243
+ P F L ++ + N+ F PG P +++P LK T
Sbjct: 123 SGMINPLGSRGNEPIQFPFPNELRCNNVQIKDNIRGFKSKPGTAKPADLTPHLKPYTQQN 182
Query: 244 --NLLQAVGQFNGHYIIIVAVMSTASSLESSKLQD----------YVQSGITMQDSDSDL 291
L+ A + M T L LQ Y++ + +D + L
Sbjct: 183 NVELIYAFTTKEYKLFGYIVEMITPEQLLEKVLQHPKIIKQATLLYLKKTLR-EDEEMGL 241
Query: 292 IEGPSRISLNCPISYKRINTPVKGHSCRHHQCFDFSNYVHINSRRPSWRCPHCNQHVCYT 351
+ +SL CPISY R+ P K +C+H QCFD ++H + P+W+CP C +
Sbjct: 242 TTTSTIMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALE 301
Query: 352 DIRVDQNMVKVLREVGENVADVIISADGSWKAIME 386
++ + + + +L+ +NV V +++DG W AI+E
Sbjct: 302 NLAISEFVDDILQNCQKNVEQVELTSDGKWTAILE 336
>pdb|4FO9|A Chain A, Crystal Structure Of The E3 Sumo Ligase Pias2
Length = 360
Score = 79.0 bits (193), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 38/141 (26%), Positives = 76/141 (53%), Gaps = 9/141 (6%)
Query: 249 VGQFNGHYIIIVAVMSTASSLESSKLQ-----DYVQSGITMQ---DSDSDLIEGPSRISL 300
+G+ + +V +++A L+ K++ D+ ++ I + D DS++ R+SL
Sbjct: 157 IGKNYSMSVYLVRQLTSAMLLQRLKMKGIRNPDHSRALIKEKLTADPDSEIATTSLRVSL 216
Query: 301 NCPISYKRINTPVKGHSCRHHQCFDFSNYVHINSRRPSWRCPHCNQHVCYTDIRVDQNMV 360
CP+ R+ P + +C H QCFD + Y+ +N ++P+W CP C++ Y + +D +
Sbjct: 217 MCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLILDGLFM 276
Query: 361 KVLREVGENVADVIISADGSW 381
++L + +V ++ DGSW
Sbjct: 277 EILNDCS-DVDEIKFQEDGSW 296
>pdb|3I45|A Chain A, Crystal Structure Of Putative Twin-Arginine Translocation
Pathway Signal Protein From Rhodospirillum Rubrum Atcc
11170
Length = 387
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 42/143 (29%), Positives = 59/143 (41%), Gaps = 19/143 (13%)
Query: 511 FMVSPVLTDAIS-PAFNREVDALGYTHLTTP--VMQSLCSAPNNLQIQQTQLMNPSVNYE 567
FM S LTDA++ NR YT+ P MQ+ A ++ T+ + NYE
Sbjct: 100 FMASEPLTDALTWEKGNR------YTYRLRPSTYMQAAMLAAEAAKLPITRWATIAPNYE 153
Query: 568 YGRSAVARHLNR--------TPMAVQ--ALPAASHGFSDMEQQQRISRSHMNTVLGSDIA 617
YG+SAVAR T +A Q AL G + QQ N + G+D+
Sbjct: 154 YGQSAVARFKELLLAARPEVTFVAEQWPALYKLDAGPTVQALQQAEPEGLFNVLFGADLP 213
Query: 618 SSPLQHQSAAQAVGLQASSALSG 640
+ + G Q S L+G
Sbjct: 214 KFVREGRVRGLFAGRQVVSMLTG 236
>pdb|2AF4|C Chain C, Phosphotransacetylase From Methanosarcina Thermophila
Co- Crystallized With Coenzyme A
pdb|2AF4|D Chain D, Phosphotransacetylase From Methanosarcina Thermophila
Co- Crystallized With Coenzyme A
Length = 333
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 20 QRVEEAAQRLAAYVLLPDHQNVREFFSLCLFLSRGI-DYAVANNEVPPKA 68
+++ E A++L + LP+ +++R + L RGI D + NE KA
Sbjct: 6 EKISERAKKLNKTIALPETEDIRTLQAAAKILERGIADIVLVGNEADIKA 55
>pdb|1QZT|A Chain A, Phosphotransacetylase From Methanosarcina Thermophila
pdb|1QZT|B Chain B, Phosphotransacetylase From Methanosarcina Thermophila
pdb|1QZT|C Chain C, Phosphotransacetylase From Methanosarcina Thermophila
pdb|1QZT|D Chain D, Phosphotransacetylase From Methanosarcina Thermophila
pdb|2AF3|C Chain C, Phosphotransacetylase From Methanosarcina Thermophila
Soaked With Coenzyme A
pdb|2AF3|D Chain D, Phosphotransacetylase From Methanosarcina Thermophila
Soaked With Coenzyme A
Length = 333
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 20 QRVEEAAQRLAAYVLLPDHQNVREFFSLCLFLSRGI-DYAVANNEVPPKA 68
+++ E A++L + LP+ +++R + L RGI D + NE KA
Sbjct: 6 EKISERAKKLNKTIALPETEDIRTLQAAAKILERGIADIVLVGNEADIKA 55
>pdb|3HTK|C Chain C, Crystal Structure Of Mms21 And Smc5 Complex
Length = 267
Score = 30.0 bits (66), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 32/76 (42%), Gaps = 11/76 (14%)
Query: 286 DSDSDLIEGPSRISLNCPISYKRINTPVKGHSCRHHQCFD---FSNYVHINSRRPSWRCP 342
D D IEG +I L CPI+ K P+ C H FD NY+ + R CP
Sbjct: 169 DEDDLQIEG-GKIELTCPITCKPYEAPLISRKCNH--VFDRDGIQNYLQGYTTR---DCP 222
Query: 343 H--CNQHVCYTDIRVD 356
C+Q V D D
Sbjct: 223 QAACSQVVSMRDFVRD 238
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
0.316 0.129 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,140,792
Number of Sequences: 62578
Number of extensions: 873686
Number of successful extensions: 2062
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2059
Number of HSP's gapped (non-prelim): 7
length of query: 870
length of database: 14,973,337
effective HSP length: 107
effective length of query: 763
effective length of database: 8,277,491
effective search space: 6315725633
effective search space used: 6315725633
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: 56 (26.2 bits)