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= 004635
(740 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LGZ|A Chain A, Solution Structure Of Stt3p
Length = 273
Score = 217 bits (552), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 117/224 (52%), Positives = 155/224 (69%), Gaps = 6/224 (2%)
Query: 514 ATHCTWVTSEAYSSPSIVLAARGAHGNRVIFDDYREAYFWLRQNTPPDAKVMSWWDYGYQ 573
+H TWVT AYSSPS+VL ++ G + DD+REAY+WLR N+ D+KV +WWDYGYQ
Sbjct: 18 GSHSTWVTRTAYSSPSVVLPSQTPDGKLALIDDFREAYYWLRMNSDEDSKVAAWWDYGYQ 77
Query: 574 ITAMGNRTVIVDNNTWNNTHIATVGRAMSSYEDEAYEIMRSLDVDYVLVVFGGVTGYSSD 633
I M +RT +VDNNTWNNTHIA VG+A +S E+++YEI++ DVDYVLV+FGG+ G+ D
Sbjct: 78 IGGMADRTTLVDNNTWNNTHIAIVGKANASPEEKSYEILKEHDVDYVLVIFGGLIGFGGD 137
Query: 634 DINKFLWMVRIGGGVFP-VIKEPD-YLVNGDYRVDKGAAPKMLNCLMYKLSYYRFGELVT 691
DINKFLW +RI G++P IKE D Y G+YRVD A+ M N L+YK+SY F +L
Sbjct: 138 DINKFLWNIRISEGIWPEEIKERDFYTAEGEYRVDARASETMRNSLLYKMSYKDFPQL-- 195
Query: 692 EYGKPPGYDRARGVEIGNKDI-KLEHLEEAFTTSNWIVRIYKVK 734
+ DR R I D+ L++ +E FT+ NW VRIY++K
Sbjct: 196 -FNGGQATDRVRQQMITPLDVPPLDYFDEVFTSENWNVRIYQLK 238
>pdb|3VU0|A Chain A, Crystal Structure Of The C-terminal Globular Domain Of
Oligosaccharyltransferase (afaglb-s2, Af_0040,
O30195_arcfu) From Archaeoglobus Fulgidus
pdb|3VU0|B Chain B, Crystal Structure Of The C-terminal Globular Domain Of
Oligosaccharyltransferase (afaglb-s2, Af_0040,
O30195_arcfu) From Archaeoglobus Fulgidus
pdb|3VU0|C Chain C, Crystal Structure Of The C-terminal Globular Domain Of
Oligosaccharyltransferase (afaglb-s2, Af_0040,
O30195_arcfu) From Archaeoglobus Fulgidus
Length = 162
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 33/111 (29%), Positives = 51/111 (45%), Gaps = 13/111 (11%)
Query: 546 DYREAYFWLRQN----------TPPDAKVMSWWDYGYQITAMGNRTVIVDNNTWNNTHIA 595
D++EA W ++N PD V+SWWDYG I + + V+ +N A
Sbjct: 6 DWKEALNWXKENLEAQDYLKAYEKPDYAVLSWWDYGNWILYVAKKAVVCNNFQAGADDAA 65
Query: 596 TVGRAMSSYEDEAYEIMRSLDVDYVLVVFGGVTGYSSDDINKFLWMVRIGG 646
A S E+EA +I+ V YV+ V +T + KF+ + +I G
Sbjct: 66 KFFTAQS--EEEAXKIVEKRKVRYVVTV-EELTVKPETNKTKFIPIXQIAG 113
>pdb|2ZAG|A Chain A, Crystal Structure Of The Semet-Substituted Soluble Domain
Of Stt3 From P. Furiosus
pdb|2ZAG|B Chain B, Crystal Structure Of The Semet-Substituted Soluble Domain
Of Stt3 From P. Furiosus
pdb|2ZAG|C Chain C, Crystal Structure Of The Semet-Substituted Soluble Domain
Of Stt3 From P. Furiosus
pdb|2ZAG|D Chain D, Crystal Structure Of The Semet-Substituted Soluble Domain
Of Stt3 From P. Furiosus
Length = 497
Score = 43.1 bits (100), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 528 PSIVLAARGAHGNRVIFDDYREAYFWLRQNTPPDAKVMSWWDYGYQITA--MGNRTVIVD 585
P + +A+ + + +A WLR+NTP + SWWDYGY I + +G R D
Sbjct: 2 PLLAQSAKSXRTTEIETSGWEDALKWLRENTPEYSTATSWWDYGYWIESSLLGQRRASAD 61
>pdb|2ZAI|A Chain A, Crystal Structure Of The Soluble Domain Of Stt3 From P.
Furiosus
pdb|2ZAI|B Chain B, Crystal Structure Of The Soluble Domain Of Stt3 From P.
Furiosus
pdb|2ZAI|C Chain C, Crystal Structure Of The Soluble Domain Of Stt3 From P.
Furiosus
pdb|2ZAI|D Chain D, Crystal Structure Of The Soluble Domain Of Stt3 From P.
Furiosus
Length = 497
Score = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 528 PSIVLAARGAHGNRVIFDDYREAYFWLRQNTPPDAKVMSWWDYGYQITA--MGNRTVIVD 585
P + +A+ + + +A WLR+NTP + SWWDYGY I + +G R D
Sbjct: 2 PLLAQSAKSMRTTEIETSGWEDALKWLRENTPEYSTATSWWDYGYWIESSLLGQRRASAD 61
>pdb|3VGP|A Chain A, Crystal Structure Of The C-Terminal Globular Domain Of
Oligosaccharyltransferase (Af_0329) From Archaeoglobus
Fulgidus
Length = 164
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 36/112 (32%), Positives = 51/112 (45%), Gaps = 14/112 (12%)
Query: 545 DDYREAYFWLR-----QN-----TPPDAKVMSWWDYGYQITAMGNRTVIVDNNTWNNTHI 594
+D++EA W R QN P+ V SWWDYG I + + V+ +N
Sbjct: 6 EDWKEALEWXRTSLEEQNYLNPYEKPEYSVXSWWDYGNWILYVSKKAVVANNFQAGAVDA 65
Query: 595 ATVGRAMSSYEDEAYEIMRSLDVDYVLVVFGGVTGYSSDDINKFLWMVRIGG 646
A A S EDEA +I + V YV V +T +++ KF + RI G
Sbjct: 66 AKFFTAKS--EDEAIKIAKKRGVRYV-VTADEITXKDANN-TKFPAIXRIAG 113
>pdb|3VU1|A Chain A, Crystal Structure Of The C-terminal Globular Domain Of
Oligosaccharyltransferase (phaglb-l, O74088_pyrho) From
Pyrococcus Horikoshii
pdb|3VU1|B Chain B, Crystal Structure Of The C-terminal Globular Domain Of
Oligosaccharyltransferase (phaglb-l, O74088_pyrho) From
Pyrococcus Horikoshii
Length = 506
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 547 YREAYFWLRQNTPPDAKVMSWWDYGYQITA--MGNRTVIVD 585
+ +A WLR NT A SWWDYGY I + +GNR D
Sbjct: 13 WEQALKWLRSNTSKYATATSWWDYGYWIESSLLGNRRASAD 53
>pdb|3RCE|A Chain A, Bacterial Oligosaccharyltransferase Pglb
Length = 724
Score = 37.0 bits (84), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 65/157 (41%), Gaps = 3/157 (1%)
Query: 128 YWTLRFLRFAVHIREVCVLTAPFFASNTTVVAYFFGKEIWDSGAGLVAAAFIAICPGYIS 187
YW L F+ + + + FFAS V +E + G +AA +I Y +
Sbjct: 89 YWLYSILPFS--FESIILYMSTFFASLIVVPIILIAREYKLTTYGFIAALLGSIANSYYN 146
Query: 188 RSVAGSYDNEGVAIFALLLTFYLFVK-AVNTGSLAWALASAFGYFYMVSAWGGYVFIINL 246
R+++G YD + + + +L F++ +N L+ F Y+ Y +
Sbjct: 147 RTMSGYYDTDMLVLVLPMLILLTFIRLTINKDIFTLLLSPIFIMIYLWWYPSSYSLNFAM 206
Query: 247 IPLYVLVLLITGRYSMRLYVAYNCMYVLGMLLAMQIR 283
I L+ L L+ R Y+A M + +LA Q +
Sbjct: 207 IGLFGLYTLVFHRKEKIFYLAIALMIIALSMLAWQYK 243
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 38/90 (42%), Gaps = 17/90 (18%)
Query: 496 KNGAIALLLGAFYLLSKYATHCTWVTSEAYSSPSIVLAARGAHGNRVIFDDYREAYFWLR 555
+N I L+L AF+ +S H + Y S ++ + + N + RE Y
Sbjct: 409 RNKNILLILIAFFSISPALMHIYY-----YKSSTVFTSYEASILNDLKNKAQREDY---- 459
Query: 556 QNTPPDAKVMSWWDYGYQITAMGNRTVIVD 585
V++WWDYGY I + ++D
Sbjct: 460 --------VVAWWDYGYPIRYYSDVKTLID 481
>pdb|3UJZ|A Chain A, Crystal Structure Of Enterohemorrhagic E. Coli Stce
Length = 869
Score = 29.6 bits (65), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%)
Query: 655 PDYLVNGDYRVDKGAAPKMLNCLMYKLSYYRFGELV 690
PD++V + VD GA K+L LSY R GE V
Sbjct: 802 PDWIVGQEVYVDSGAKAKVLLSDWDNLSYNRIGEFV 837
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
0.327 0.140 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,783,181
Number of Sequences: 62578
Number of extensions: 845144
Number of successful extensions: 2012
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1997
Number of HSP's gapped (non-prelim): 13
length of query: 740
length of database: 14,973,337
effective HSP length: 106
effective length of query: 634
effective length of database: 8,340,069
effective search space: 5287603746
effective search space used: 5287603746
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 55 (25.8 bits)