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= 001576
(1050 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WEO|A Chain A, Solution Structure Of Ring-Finger In The Catalytic
Subunit (Irx3) Of Cellulose Synthase
Length = 93
Score = 94.0 bits (232), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 42/68 (61%), Positives = 50/68 (73%)
Query: 30 PTRQSGSKLCRVCGDEIGLKENGELFVACHECGFPVCRPCYEYERSEGSQCCPGCNTRYK 89
P + + C +CGD+IGL G+LFVAC+ECGFP CRPCYEYER EG+Q CP C TRYK
Sbjct: 10 PLKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK 69
Query: 90 RHKGCARV 97
R +G RV
Sbjct: 70 RLRGSPRV 77
>pdb|4HG6|A Chain A, Structure Of A Cellulose Synthase - Cellulose
Translocation Intermediate
Length = 802
Score = 53.5 bits (127), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 51/202 (25%), Positives = 85/202 (42%), Gaps = 19/202 (9%)
Query: 742 GWIYGSITEDILTGFKMHCRGWKSVYCVPKRPAFKGSAPINLSDRLHQVLRWALGSVEIF 801
G+ +ITED T ++H RGWKS+Y R G P + + Q RWA G +++
Sbjct: 334 GFAGETITEDAETALEIHSRGWKSLYI--DRAMIAGLQPETFASFIQQRGRWATGMMQML 391
Query: 802 LSRHCPLWYGYGGKLKWLERLAYTNTIVYPFTSIPLLAYCTLPAICLLTG-KFIIPTLNN 860
L ++ G G +RL Y N++ + F + + + P I L G + + T
Sbjct: 392 LLKNPLFRRGLGIA----QRLCYLNSMSFWFFPLVRMMFLVAPLIYLFFGIEIFVATFEE 447
Query: 861 LASIWFLALFLSIIVTGVLELRWSGVSIEDWWRNEQFWVIGGVSAHLFAVFQGLLKVLAG 920
+ + L +S +V L R + W + + + A+ LL+ +
Sbjct: 448 VLAYMPGYLAVSFLVQNALFAR------QRWPLVSEVYEVAQAPYLARAIVTTLLRPRSA 501
Query: 921 VDTNFTVTSKSAEDEEFGELYL 942
F VT+K DE E Y+
Sbjct: 502 ---RFAVTAK---DETLSENYI 517
>pdb|2AW2|B Chain B, Crystal Structure Of The Human Btla-hvem Complex
pdb|2AW2|Y Chain Y, Crystal Structure Of The Human Btla-hvem Complex
Length = 108
Score = 33.5 bits (75), Expect = 0.66, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 69 CYEYERSEGSQCCPGCNTRYKRHKGCARVAG 99
C E E GS+CCP C+ Y+ + C + G
Sbjct: 8 CKEDEYPVGSECCPKCSPGYRVKEACGELTG 38
>pdb|4FHQ|A Chain A, Crystal Structure Of Hvem
Length = 134
Score = 33.5 bits (75), Expect = 0.66, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 69 CYEYERSEGSQCCPGCNTRYKRHKGCARVAG 99
C E E GS+CCP C+ Y+ + C + G
Sbjct: 6 CKEDEYPVGSECCPKCSPGYRVKEACGELTG 36
>pdb|1JMA|B Chain B, Crystal Structure Of The Herpes Simplex Virus
Glycoprotein D Bound To The Cellular Receptor HveaHVEM
Length = 167
Score = 33.1 bits (74), Expect = 0.76, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 69 CYEYERSEGSQCCPGCNTRYKRHKGCARVAG 99
C E E GS+CCP C+ Y+ + C + G
Sbjct: 4 CKEDEYPVGSECCPKCSPGYRVKEACGELTG 34
>pdb|3VK6|A Chain A, Crystal Structure Of A Phosphotyrosine Binding Domain
Length = 101
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 13/52 (25%)
Query: 58 CHECGFPV-------------CRPCYEYERSEGSQCCPGCNTRYKRHKGCAR 96
C +CG P+ C C +G + CPGC+ +R + C R
Sbjct: 4 CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTR 55
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 32 RQSGSKLCRVCGDEIG-LKENGELFVACHECGFPVCRPCYEYERSEGSQCCPGCNTR--Y 88
R SG+ C +C D + +NG L V+ ECG C C + + + CP C + +
Sbjct: 6 RPSGTVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLR-DSLKNANTCPTCRKKINH 63
Query: 89 KRH 91
KR+
Sbjct: 64 KRY 66
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 32.3 bits (72), Expect = 1.5, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 32 RQSGSKLCRVCGDEIG-LKENGELFVACHECGFPVCRPCYEYERSEGSQCCPGCNTR 87
R SG+ C +C D + +NG L V+ ECG C C + + + CP C +
Sbjct: 11 RPSGTVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLR-DSLKNANTCPTCRKK 65
>pdb|1UR6|B Chain B, Nmr Based Structural Model Of The Ubch5b-Cnot4 Complex
Length = 52
Score = 31.6 bits (70), Expect = 2.6, Method: Composition-based stats.
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 55 FVACHECGFPVCRPCYEYERSEGSQCCPGCNTRY 88
F C CG+ +CR C+ R++ + CP C Y
Sbjct: 17 FFPC-TCGYQICRFCWHRIRTDENGLCPACRKPY 49
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.2 bits (69), Expect = 3.4, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 34 SGSKLCRVCGDEIG-LKENGELFVACHECGFPVCRPCYEYERSEGSQCCPGCNTR--YKR 90
SG+ C +C D + +NG L V+ ECG C C + + + CP C + +KR
Sbjct: 5 SGTVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLR-DSLKNANTCPTCRKKINHKR 62
Query: 91 H 91
+
Sbjct: 63 Y 63
Score = 31.2 bits (69), Expect = 3.4, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 34 SGSKLCRVCGDEIG-LKENGELFVACHECGFPVCRPCYEYERSEGSQCCPGCNTR--YKR 90
SG+ C +C D + +NG L V+ ECG C C + + + CP C + +KR
Sbjct: 70 SGTVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLR-DSLKNANTCPTCRKKINHKR 127
Query: 91 H 91
+
Sbjct: 128 Y 128
>pdb|3MPX|A Chain A, Crystal Structure Of The Dh And Ph-1 Domains Of Human Fgd5
Length = 434
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 11/66 (16%)
Query: 27 ERPPTRQSGSKL--CRVCGDEIGLKENGELFVACHECGFPVCRPC------YEYERSEGS 78
ERPPT + + C CG + L CH CG VCR C +Y + +
Sbjct: 364 ERPPTLVPVTHVXXCXNCGCDFSLTLRRH---HCHACGKIVCRNCSRNKYPLKYLKDRXA 420
Query: 79 QCCPGC 84
+ C GC
Sbjct: 421 KVCDGC 426
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 30.4 bits (67), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 3/89 (3%)
Query: 419 INALVSKAQKKPEEGWVMQDGTPWPGNNTRDHPGMIQVYLGSEGALDVEGKELPRLVYVS 478
I ++ +A+ V+ TP PG+ T HP + +V L + G + GK +P + V
Sbjct: 114 IGTVLDQAETAGARLVVLATATP-PGSVTVPHPNIEEVALSNTGEIPFYGKAIP--IEVI 170
Query: 479 REKRPGYNHHKKAGAMNALVRVSAVLTNA 507
R R H K ++SA+ NA
Sbjct: 171 RGGRHLIFCHSKKKCDELAAKLSALGLNA 199
>pdb|3IZ6|N Chain N, Localization Of The Small Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 56
Score = 30.4 bits (67), Expect = 5.6, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 11/50 (22%)
Query: 23 HAN--EERPPTRQSGSKLCRVCGDEIGLKENGELFVACHECGFPVCRPCY 70
H+N P +GS++CRVCG+ GL + G CR C+
Sbjct: 3 HSNVWNSHPKNYGAGSRVCRVCGNSHGL---------IRKYGLMCCRQCF 43
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
0.322 0.139 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,007,003
Number of Sequences: 62578
Number of extensions: 1217661
Number of successful extensions: 2677
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2662
Number of HSP's gapped (non-prelim): 20
length of query: 1050
length of database: 14,973,337
effective HSP length: 109
effective length of query: 941
effective length of database: 8,152,335
effective search space: 7671347235
effective search space used: 7671347235
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.6 bits)