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= psy11774
(304 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 125 bits (314), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 90/241 (37%), Positives = 121/241 (50%), Gaps = 24/241 (9%)
Query: 26 GAILCFLPGWQDIIQVSRVLSAIPGLLVTMA----------HSKLDTEVQGAIFGHPP-- 73
G IL FL G +I R +S LV + L Q IF P
Sbjct: 304 GDILLFLTGEDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPES 363
Query: 74 ----PGMRKVVLSTNVAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVN 129
PG RKVV+STN+AETS+TID + YVVD G K+ YN + + SL IS+AS
Sbjct: 364 HNGRPG-RKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQ 422
Query: 130 QRAGRAGRTKPGESFHLYSEDRYRR-MAEYSLPEIFRKPLEQILLTCKVGESLYSTERCS 188
QRAGRAGRT+PG+ F LY+E+ +++ + E S PEI R L +L K +
Sbjct: 423 QRAGRAGRTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKK----LGIDDLV 478
Query: 189 SFLSQLPEPPDPASITSAATELKLMGVFDQEENLTPLGKRIAAMPCHPKLSKALVESVIY 248
F +PP P ++ A EL + D E NLTPLG+ + P P L+ L+ S +
Sbjct: 479 HF--DFMDPPAPETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEF 536
Query: 249 K 249
+
Sbjct: 537 Q 537
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 125 bits (314), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 90/241 (37%), Positives = 121/241 (50%), Gaps = 24/241 (9%)
Query: 26 GAILCFLPGWQDIIQVSRVLSAIPGLLVTMA----------HSKLDTEVQGAIFGHPP-- 73
G IL FL G +I R +S LV + L Q IF P
Sbjct: 304 GDILLFLTGEDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPES 363
Query: 74 ----PGMRKVVLSTNVAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVN 129
PG RKVV+STN+AETS+TID + YVVD G K+ YN + + SL IS+AS
Sbjct: 364 HNGRPG-RKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQ 422
Query: 130 QRAGRAGRTKPGESFHLYSEDRYRR-MAEYSLPEIFRKPLEQILLTCKVGESLYSTERCS 188
QRAGRAGRT+PG+ F LY+E+ +++ + E S PEI R L +L K +
Sbjct: 423 QRAGRAGRTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKK----LGIDDLV 478
Query: 189 SFLSQLPEPPDPASITSAATELKLMGVFDQEENLTPLGKRIAAMPCHPKLSKALVESVIY 248
F +PP P ++ A EL + D E NLTPLG+ + P P L+ L+ S +
Sbjct: 479 HF--DFMDPPAPETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEF 536
Query: 249 K 249
+
Sbjct: 537 Q 537
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 202 SITSAATELKLMGVFDQEENLTPLGKRIAAMPCHPKLSKALVESV 246
++ +A +L +G D E LT LG+R+A P P L K L+ SV
Sbjct: 19 TLITAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLIMSV 63
>pdb|1S0I|A Chain A, Trypanosoma Cruzi Trans-Sialidase In Complex With Sialyl-
Lactose (Michaelis Complex)
pdb|1S0J|A Chain A, Trypanosoma Cruzi Trans-Sialidase In Complex With Munana
(Michaelis Complex)
Length = 648
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 46/116 (39%), Gaps = 15/116 (12%)
Query: 120 NQWISRASVNQRAGRAGRTKPGESFHLYSEDRYRRMAEYSLPEIFRKPLEQILLTCKVGE 179
N W++ NQR G+ G+ YS Y+ Y L EI + ++ VGE
Sbjct: 332 NLWLTD---NQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGE 388
Query: 180 ------SLYSTERCSSFLSQLPEPPDPASITS------AATELKLMGVFDQEENLT 223
L S + S LS + P DPA+ +S A T + L+G T
Sbjct: 389 LRIIKSVLQSWKNWDSHLSSICTPADPAASSSERGCGPAVTTVGLVGFLSHSATKT 444
>pdb|1MS5|A Chain A, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase,
Soaked With N-Acetylneuraminyl-A-2,3-Thio-Galactoside
(Na-S-Gal)
pdb|1MS5|B Chain B, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase,
Soaked With N-Acetylneuraminyl-A-2,3-Thio-Galactoside
(Na-S-Gal)
Length = 648
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 46/116 (39%), Gaps = 15/116 (12%)
Query: 120 NQWISRASVNQRAGRAGRTKPGESFHLYSEDRYRRMAEYSLPEIFRKPLEQILLTCKVGE 179
N W++ NQR G+ G+ YS Y+ Y L EI + ++ VGE
Sbjct: 332 NLWLTD---NQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGE 388
Query: 180 ------SLYSTERCSSFLSQLPEPPDPASITS------AATELKLMGVFDQEENLT 223
L S + S LS + P DPA+ +S A T + L+G T
Sbjct: 389 LRIIKSVLQSWKNWDSHLSSICTPADPAASSSERGCGPAVTTVGLVGFLSHSATKT 444
>pdb|1MR5|A Chain A, Orthorhombic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS0|A Chain A, Monoclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With 3-Deoxy-2,3-Dehydro-N-Acetylneuraminic Acid
(Dana)and Lactose
pdb|1MS0|B Chain B, Monoclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With 3-Deoxy-2,3-Dehydro-N-Acetylneuraminic Acid
(Dana)and Lactose
pdb|1MS1|A Chain A, Monoclinic Form Of Trypanosoma Cruzi Trans-sialidase, In
Complex With 3-deoxy-2,3-dehydro-n-acetylneuraminic Acid
(dana)
pdb|1MS1|B Chain B, Monoclinic Form Of Trypanosoma Cruzi Trans-sialidase, In
Complex With 3-deoxy-2,3-dehydro-n-acetylneuraminic Acid
(dana)
pdb|1MS3|A Chain A, Monoclinic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS3|B Chain B, Monoclinic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS4|A Chain A, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS4|B Chain B, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS8|A Chain A, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With 3-Deoxy-2,3-Dehydro-N-Acetylneuraminic Acid
(Dana)
pdb|1MS8|B Chain B, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With 3-Deoxy-2,3-Dehydro-N-Acetylneuraminic Acid
(Dana)
pdb|1MS9|A Chain A, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With Lactose
pdb|1MS9|B Chain B, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With Lactose
pdb|2AH2|A Chain A, Trypanosoma Cruzi Trans-Sialidase In Complex With
2,3-Difluorosialic Acid (Covalent Intermediate)
pdb|3B69|A Chain A, T Cruzi Trans-Sialidase Complex With Benzoylated Nana
Derivative
pdb|3OPZ|A Chain A, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|B Chain B, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|C Chain C, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
Length = 648
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 46/116 (39%), Gaps = 15/116 (12%)
Query: 120 NQWISRASVNQRAGRAGRTKPGESFHLYSEDRYRRMAEYSLPEIFRKPLEQILLTCKVGE 179
N W++ NQR G+ G+ YS Y+ Y L EI + ++ VGE
Sbjct: 332 NLWLTD---NQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGE 388
Query: 180 ------SLYSTERCSSFLSQLPEPPDPASITS------AATELKLMGVFDQEENLT 223
L S + S LS + P DPA+ +S A T + L+G T
Sbjct: 389 LRIIKSVLQSWKNWDSHLSSICTPADPAASSSERGCGPAVTTVGLVGFLSHSATKT 444
>pdb|3G1Z|A Chain A, Structure Of Idp01693YJEA, A POTENTIAL T-Rna Synthetase
From Salmonella Typhimurium
pdb|3G1Z|B Chain B, Structure Of Idp01693YJEA, A POTENTIAL T-Rna Synthetase
From Salmonella Typhimurium
Length = 326
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 36/91 (39%), Gaps = 7/91 (7%)
Query: 150 DRYRRMAEYSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLPEPPDPASITSAATE 209
D YR M E L Q +L C+ ESL + L P D + AA +
Sbjct: 124 DMYRLMNEVD-------DLLQQVLDCQPAESLSYQQAFQRHLEIDPLSADKTQLREAAAK 176
Query: 210 LKLMGVFDQEENLTPLGKRIAAMPCHPKLSK 240
L L + D EE+ L + + M P + K
Sbjct: 177 LDLSNIADTEEDRDTLLQLLFTMGVEPHIGK 207
>pdb|3A5Z|A Chain A, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|C Chain C, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|E Chain E, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|G Chain G, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
Length = 328
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 34/91 (37%), Gaps = 7/91 (7%)
Query: 150 DRYRRMAEYSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLPEPPDPASITSAATE 209
D YR M E L Q +L C ESL + +L P D + A +
Sbjct: 126 DMYRLMNEVD-------DLLQQVLDCPAAESLSYQQAFLRYLEIDPLSADKTQLREVAAK 178
Query: 210 LKLMGVFDQEENLTPLGKRIAAMPCHPKLSK 240
L L V D EE+ L + + P + K
Sbjct: 179 LDLSNVADTEEDRDTLLQLLFTFGVEPNIGK 209
>pdb|3A5Y|A Chain A, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|B Chain B, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|C Chain C, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|D Chain D, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
Length = 345
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 34/91 (37%), Gaps = 7/91 (7%)
Query: 150 DRYRRMAEYSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLPEPPDPASITSAATE 209
D YR M E L Q +L C ESL + +L P D + A +
Sbjct: 143 DMYRLMNEVD-------DLLQQVLDCPAAESLSYQQAFLRYLEIDPLSADKTQLREVAAK 195
Query: 210 LKLMGVFDQEENLTPLGKRIAAMPCHPKLSK 240
L L V D EE+ L + + P + K
Sbjct: 196 LDLSNVADTEEDRDTLLQLLFTFGVEPNIGK 226
>pdb|2BE7|D Chain D, Crystal Structure Of The Unliganded (T-State) Aspartate
Transcarbamoylase Of The Psychrophilic Bacterium
Moritella Profunda
pdb|2BE7|E Chain E, Crystal Structure Of The Unliganded (T-State) Aspartate
Transcarbamoylase Of The Psychrophilic Bacterium
Moritella Profunda
pdb|2BE7|F Chain F, Crystal Structure Of The Unliganded (T-State) Aspartate
Transcarbamoylase Of The Psychrophilic Bacterium
Moritella Profunda
Length = 153
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 21/105 (20%), Positives = 42/105 (40%), Gaps = 10/105 (9%)
Query: 57 HSKLDTEVQGAIFGHPPPGMRKVVLSTNVAETSITIDDVAYVVDTGCHKETRYNSKDDLV 116
H +++ G + H P G +L ++ D V G + T+ + DL+
Sbjct: 5 HMQVEAICNGYVIDHIPSGQGVKILKL------FSLTDTKQRVTVGFNLPTKDGNAKDLI 58
Query: 117 SLDNQWISRASVNQRAGRAGRTKPGESFHLYSEDRYRRMAEYSLP 161
++N I+++ NQ A A P + ++ + +LP
Sbjct: 59 KVENTEITKSQANQLALLA----PNATINIIENFKVTDKHSLTLP 99
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
0.320 0.136 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,487,624
Number of Sequences: 62578
Number of extensions: 326037
Number of successful extensions: 674
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 13
length of query: 304
length of database: 14,973,337
effective HSP length: 98
effective length of query: 206
effective length of database: 8,840,693
effective search space: 1821182758
effective search space used: 1821182758
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)