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= psy12346
(107 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CEZ|A Chain A, Crystal Structure Of Methionine-R-Sulfoxide Reductase From
Burkholderia Pseudomallei
pdb|3CEZ|B Chain B, Crystal Structure Of Methionine-R-Sulfoxide Reductase From
Burkholderia Pseudomallei
pdb|3CXK|A Chain A, 1.7 A Crystal Structure Of Methionine-R-Sulfoxide
Reductase From Burkholderia Pseudomallei:
Crystallization In A Microfluidic Crystal Card.
pdb|3CXK|B Chain B, 1.7 A Crystal Structure Of Methionine-R-Sulfoxide
Reductase From Burkholderia Pseudomallei:
Crystallization In A Microfluidic Crystal Card
Length = 164
Score = 87.8 bits (216), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 37/82 (45%), Positives = 51/82 (62%)
Query: 13 NKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSGCG 72
+ EL++RLTPMQY VTQ TE PF+G+Y ++G Y C+VC LF S K+ SGCG
Sbjct: 36 DDAELRRRLTPMQYEVTQHAATEPPFTGEYTDTEDAGIYHCVVCGTALFESGAKYHSGCG 95
Query: 73 WPAFNDVLDQGKVKLTKDTSHG 94
WP++ +D + D +HG
Sbjct: 96 WPSYFKPIDGEVIDEKMDYTHG 117
>pdb|2K8D|A Chain A, Solution Structure Of A Zinc-Binding Methionine Sulfoxide
Reductase
Length = 151
Score = 84.7 bits (208), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 37/86 (43%), Positives = 56/86 (65%)
Query: 11 KINKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSG 70
+++ +E ++ L P + V ++ GTE PF+GKY+ + G Y CI C LF S+TKFDSG
Sbjct: 22 ELSDDEWREILDPEAFRVARKAGTEPPFTGKYHDLHDDGIYRCICCGTDLFDSETKFDSG 81
Query: 71 CGWPAFNDVLDQGKVKLTKDTSHGKL 96
GWP+F DV+ + +KL +D S G +
Sbjct: 82 TGWPSFYDVVSEHNIKLREDRSLGMV 107
>pdb|3E0O|A Chain A, Crystal Structure Of Msrb
pdb|3E0O|B Chain B, Crystal Structure Of Msrb
pdb|3E0O|C Chain C, Crystal Structure Of Msrb
pdb|3E0O|D Chain D, Crystal Structure Of Msrb
pdb|3E0O|E Chain E, Crystal Structure Of Msrb
pdb|3E0O|F Chain F, Crystal Structure Of Msrb
Length = 144
Score = 84.0 bits (206), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 43/90 (47%), Positives = 57/90 (63%), Gaps = 1/90 (1%)
Query: 13 NKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSGCG 72
NKEE K L MQY VTQ GTE PF +Y + E G Y IV +PLF+S+ KFDS CG
Sbjct: 5 NKEEKIKSLNRMQYEVTQNNGTEPPFQNEYWDHKEEGLYVDIVSGKPLFTSKDKFDSQCG 64
Query: 73 WPAFNDVLDQGKVKLTKDTSHGKLYGDLVS 102
WP+F +++ +V+ DTSHG + ++ S
Sbjct: 65 WPSFTKPIEE-EVEEKLDTSHGMIRTEVRS 93
>pdb|2KZN|A Chain A, Solution Nmr Structure Of Peptide Methionine Sulfoxide
Reductase Msrb From Bacillus Subtilis, Northeast
Structural Genomics Consortium Target Sr10
Length = 151
Score = 83.6 bits (205), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 43/90 (47%), Positives = 57/90 (63%), Gaps = 1/90 (1%)
Query: 13 NKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSGCG 72
NKEE K L MQY VTQ GTE PF +Y + E G Y IV +PLF+S+ KFDS CG
Sbjct: 4 NKEEKIKSLNRMQYEVTQNNGTEPPFQNEYWDHKEEGLYVDIVSGKPLFTSKDKFDSQCG 63
Query: 73 WPAFNDVLDQGKVKLTKDTSHGKLYGDLVS 102
WP+F +++ +V+ DTSHG + ++ S
Sbjct: 64 WPSFTKPIEE-EVEEKLDTSHGMIRTEVRS 92
>pdb|2L1U|A Chain A, Structure-Functional Analysis Of Mammalian Msrb2 Protein
Length = 143
Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 35/64 (54%), Positives = 48/64 (75%)
Query: 16 ELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSGCGWPA 75
+ +K+LTP Q++VT+EKGTE PFSG Y N E+G Y C+ C PLFSS+ K+ SG GWP+
Sbjct: 3 DWQKKLTPEQFYVTREKGTEAPFSGMYLNNKETGMYHCVCCDSPLFSSEKKYCSGTGWPS 62
Query: 76 FNDV 79
F++
Sbjct: 63 FSEA 66
>pdb|3E0M|A Chain A, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|B Chain B, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|C Chain C, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|D Chain D, Crystal Structure Of Fusion Protein Of Msra And Msrb
Length = 313
Score = 79.3 bits (194), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 37/84 (44%), Positives = 50/84 (59%)
Query: 11 KINKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSG 70
K ++E LK L+ Y VTQE TE PF+ Y++ E G Y I +PLF ++ KF SG
Sbjct: 170 KPSQEVLKASLSEESYRVTQEAATEAPFTNAYDQTFEEGIYVDITTGEPLFFAKDKFASG 229
Query: 71 CGWPAFNDVLDQGKVKLTKDTSHG 94
CGWP+F+ L + + KD SHG
Sbjct: 230 CGWPSFSRPLSKELIHYYKDLSHG 253
>pdb|3HCG|A Chain A, Structure Of The C-Terminal Domain (Msrb) Of Neisseria
Meningitidis Pilb (Reduced Form)
pdb|3HCG|B Chain B, Structure Of The C-Terminal Domain (Msrb) Of Neisseria
Meningitidis Pilb (Reduced Form)
pdb|3HCG|C Chain C, Structure Of The C-Terminal Domain (Msrb) Of Neisseria
Meningitidis Pilb (Reduced Form)
pdb|3HCG|D Chain D, Structure Of The C-Terminal Domain (Msrb) Of Neisseria
Meningitidis Pilb (Reduced Form)
Length = 146
Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/83 (44%), Positives = 48/83 (57%)
Query: 11 KINKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSG 70
K + ELK+ LT QY VTQ TE FS +Y+ + G Y +V +PLFSS K+DSG
Sbjct: 4 KPSDAELKRTLTEEQYQVTQNSATEYAFSHEYDHLFKPGIYVDVVSGEPLFSSADKYDSG 63
Query: 71 CGWPAFNDVLDQGKVKLTKDTSH 93
CGWP+F +D V D S+
Sbjct: 64 CGWPSFTRPIDAKSVTEHDDFSY 86
>pdb|1L1D|A Chain A, Crystal Structure Of The C-Terminal Methionine Sulfoxide
Reductase Domain (Msrb) Of N. Gonorrhoeae Pilb
pdb|1L1D|B Chain B, Crystal Structure Of The C-Terminal Methionine Sulfoxide
Reductase Domain (Msrb) Of N. Gonorrhoeae Pilb
Length = 152
Score = 74.3 bits (181), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 37/82 (45%), Positives = 47/82 (57%)
Query: 11 KINKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSG 70
K + ELK+ LT QY VTQ TE FS +Y+ + G Y +V +PLFSS K+DSG
Sbjct: 10 KPSDAELKRTLTEEQYQVTQNSATEYAFSHEYDHLFKPGIYVDVVSGEPLFSSADKYDSG 69
Query: 71 CGWPAFNDVLDQGKVKLTKDTS 92
CGWP+F +D V D S
Sbjct: 70 CGWPSFTRPIDAKSVTEHDDFS 91
>pdb|3HCJ|A Chain A, Structure Of Msrb From Xanthomonas Campestris (Oxidized
Form)
pdb|3HCJ|B Chain B, Structure Of Msrb From Xanthomonas Campestris (Oxidized
Form)
Length = 154
Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 35/89 (39%), Positives = 48/89 (53%)
Query: 13 NKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSGCG 72
++ L L+ + V GTE PF G + N G YTC +C PLF S KFDSG G
Sbjct: 13 QRDALIAGLSDEEQRVLLHHGTEAPFCGVFLDNKLDGVYTCRLCGLPLFRSNAKFDSGTG 72
Query: 73 WPAFNDVLDQGKVKLTKDTSHGKLYGDLV 101
WP+F D V+ +DTS+G + ++V
Sbjct: 73 WPSFFAPYDPAHVREIRDTSYGMIRTEIV 101
>pdb|3HCI|A Chain A, Structure Of Msrb From Xanthomonas Campestris
(Complex-Like Form)
pdb|3HCI|B Chain B, Structure Of Msrb From Xanthomonas Campestris
(Complex-Like Form)
Length = 154
Score = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 35/89 (39%), Positives = 48/89 (53%)
Query: 13 NKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSGCG 72
++ L L+ + V GTE PF G + N G YTC +C PLF S KFDSG G
Sbjct: 13 QRDALIAGLSDEEQRVLLHHGTEAPFCGVFLDNKLDGVYTCRLCGLPLFRSNAKFDSGTG 72
Query: 73 WPAFNDVLDQGKVKLTKDTSHGKLYGDLV 101
WP+F D V+ +DTS+G + ++V
Sbjct: 73 WPSFFAPYDPAHVREIRDTSYGMVRTEIV 101
>pdb|3HCH|A Chain A, Structure Of The C-Terminal Domain (Msrb) Of Neisseria
Meningitidis Pilb (Complex With Substrate)
pdb|3HCH|B Chain B, Structure Of The C-Terminal Domain (Msrb) Of Neisseria
Meningitidis Pilb (Complex With Substrate)
Length = 146
Score = 71.6 bits (174), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 36/83 (43%), Positives = 47/83 (56%)
Query: 11 KINKEELKKRLTPMQYHVTQEKGTERPFSGKYNKNTESGTYTCIVCAQPLFSSQTKFDSG 70
K + ELK+ LT QY VTQ TE FS +Y+ + G Y +V +PLFSS K+DSG
Sbjct: 4 KPSDAELKRTLTEEQYQVTQNSATEYAFSHEYDHLFKPGIYVDVVSGEPLFSSADKYDSG 63
Query: 71 CGWPAFNDVLDQGKVKLTKDTSH 93
GWP+F +D V D S+
Sbjct: 64 SGWPSFTRPIDAKSVTEHDDFSY 86
>pdb|3MAO|A Chain A, Crystal Structure Of Human Methionine-R-Sulfoxide
Reductase B1 (Msrb1)
Length = 105
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 42 YNKNTESGTYTCIVCAQPLFSSQTKFDSGCGWPAFNDVLDQGKV 85
+ + E G Y C C LFSS++K+ WPAF + + V
Sbjct: 5 FQNHFEPGVYVCAKCGYELFSSRSKYAHSSPWPAFTETIHADSV 48
>pdb|2KV1|A Chain A, Insights Into Function, Catalytic Mechanism And Fold
Evolution Of Mouse Selenoprotein Methionine Sulfoxide
Reductase B1 Through Structural Analysis
Length = 124
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 42 YNKNTESGTYTCIVCAQPLFSSQTKFDSGCGWPAFNDVLDQGKV 85
+ + E G Y C C+ LFSS +K+ WPAF + + V
Sbjct: 12 FQNHFEPGVYVCAKCSYELFSSHSKYAHSSPWPAFTETIHPDSV 55
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 10 CKINKEELKKRLTPMQYH--VTQEKGTERPFSGKYNKNTESGTYTC 53
C I K E KK L +++H +TQ K T K K ESG C
Sbjct: 305 CSILKNEFKKDLPILEFHGKITQNKRTSLV---KRFKKDESGILVC 347
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 10 CKINKEELKKRLTPMQYH--VTQEKGTERPFSGKYNKNTESGTYTC 53
C I K E KK L +++H +TQ K T K K ESG C
Sbjct: 356 CSILKNEFKKDLPILEFHGKITQNKRTSLV---KRFKKDESGILVC 398
>pdb|1Y8Q|B Chain B, Sumo E1 Activating Enzyme Sae1-Sae2-Mg-Atp Complex
pdb|1Y8Q|D Chain D, Sumo E1 Activating Enzyme Sae1-Sae2-Mg-Atp Complex
pdb|1Y8R|B Chain B, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
pdb|1Y8R|E Chain E, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
Length = 640
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 32 KGTERPFSGKYNKNTESGTYTCIVCAQPLFS 62
K T+R F G +NT S CIV A+ LF+
Sbjct: 164 KPTQRTFPGATIRNTPSEPIHCIVWAKYLFN 194
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 10 CKINKEELKKRLTPMQYH--VTQEKGTERPFSGKYNKNTESGTYTC 53
C I K E KK L +++H +TQ K T K K ESG C
Sbjct: 50 CSILKNEFKKDLPILEFHGKITQNKRTSL---VKRFKKDESGILVC 92
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna
Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna
Duplex
Length = 257
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 10 CKINKEELKKRLTPMQYH--VTQEKGTERPFSGKYNKNTESGTYTC 53
C I K E KK L +++H +TQ K T K K ESG C
Sbjct: 50 CSILKNEFKKDLPILEFHGKITQNKRTSL---VKRFKKDESGILVC 92
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna
Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna
Duplex
Length = 257
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 10 CKINKEELKKRLTPMQYH--VTQEKGTERPFSGKYNKNTESGTYTC 53
C I K E KK L +++H +TQ K T K K ESG C
Sbjct: 50 CSILKNEFKKDLPILEFHGKITQNKRTSL---VKRFKKDESGILVC 92
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 10 CKINKEELKKRLTPMQYH--VTQEKGTERPFSGKYNKNTESGTYTC 53
C I K E KK L +++H +TQ K T K K ESG C
Sbjct: 305 CSILKNEFKKDLPILEFHGKITQNKRTSLV---KRFKKDESGILVC 347
>pdb|3KYD|B Chain B, Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mimic
Length = 551
Score = 26.2 bits (56), Expect = 5.3, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 32 KGTERPFSGKYNKNTESGTYTCIVCAQPLFS 62
K T+R F G +NT S CIV A+ LF+
Sbjct: 166 KPTQRTFPGCTIRNTPSEPIHCIVWAKYLFN 196
>pdb|3KYC|B Chain B, Human Sumo E1 Complex With A Sumo1-Amp Mimic
Length = 660
Score = 25.8 bits (55), Expect = 6.2, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 32 KGTERPFSGKYNKNTESGTYTCIVCAQPLFS 62
K T+R F G +NT S CIV A+ LF+
Sbjct: 184 KPTQRTFPGCTIRNTPSEPIHCIVWAKYLFN 214
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
0.314 0.132 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,626,496
Number of Sequences: 62578
Number of extensions: 141711
Number of successful extensions: 299
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 282
Number of HSP's gapped (non-prelim): 23
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)