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= 040979
(292 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 128 bits (321), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 66/143 (46%), Positives = 91/143 (63%), Gaps = 2/143 (1%)
Query: 1 KYEVFLNFRGKDTRNGFTSHLAAALHRKQIQFFIDDEELRKGDEISPAFSNAIQNSDISI 60
+YEVFL+FRG DTR FT L +L R +I F DD+EL KG EI P AI S I +
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 61 VIFSKDYASSKWCLNELVKILDSKKMNG-QIVIPVFYQVDPSDVRKQKGSFGEAFIHLEN 119
I S YA SKWCL EL +I+ ++ + +I++P+FY VDPSDVR Q G + +AF N
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 120 NFAGK-VKKWRDAVTEASNLSGY 141
F G+ ++ W+DA+ + +L G+
Sbjct: 155 KFDGQTIQNWKDALKKVGDLKGW 177
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 124 bits (311), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 64/141 (45%), Positives = 87/141 (61%), Gaps = 1/141 (0%)
Query: 1 KYEVFLNFRGKDTRNGFTSHLAAALHRKQIQFFIDDEELRKGDEISPAFSNAIQNSDISI 60
KY+VFL+FRG DTR+ F S L L R+ I+ F DD+EL G SP + I+ S ++
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 61 VIFSKDYASSKWCLNELVKILDSKKMNGQIVIPVFYQVDPSDVRKQKGSFGEAF-IHLEN 119
V+ S++YA+S WCL+ELV I+D +K V+P+FY V+P+ VR Q G E F H
Sbjct: 68 VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR 127
Query: 120 NFAGKVKKWRDAVTEASNLSG 140
KV KWR A+T + LSG
Sbjct: 128 EDPEKVLKWRQALTNFAQLSG 148
>pdb|3H16|A Chain A, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|B Chain B, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|C Chain C, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|D Chain D, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
Length = 154
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/102 (21%), Positives = 47/102 (46%), Gaps = 1/102 (0%)
Query: 2 YEVFLNFRGKDTRNGFTSHLAAALHRKQIQFFIDDEELRKGDEISPAFSNAIQNSDISIV 61
+++F++ +D + F LA L + + DD LR GD + + + +S IV
Sbjct: 21 HDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIV 79
Query: 62 IFSKDYASSKWCLNELVKILDSKKMNGQIVIPVFYQVDPSDV 103
+ S + +W EL + + ++P++++V +V
Sbjct: 80 VLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEV 121
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 32.0 bits (71), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 200 ELHDVRVIGIWGMGGIGKTTIASVVFHQISGD 231
E + +IGI G GIGKTT A ++ +I+ D
Sbjct: 290 EAKEGEIIGILGPNGIGKTTFARILVGEITAD 321
>pdb|3ZYW|A Chain A, Crystal Structure Of The First Glutaredoxin Domain Of
Human Glutaredoxin 3 (Glrx3)
pdb|3ZYW|B Chain B, Crystal Structure Of The First Glutaredoxin Domain Of
Human Glutaredoxin 3 (Glrx3)
Length = 111
Score = 30.8 bits (68), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 4 VFLNFRGKDTRNGFTSHLAAALHRKQIQF----FIDDEELRKG 42
+F+ ++ R GF+ + LH+ IQF DEE+R+G
Sbjct: 20 LFMKGTPQEPRCGFSKQMVEILHKHNIQFSSFDIFSDEEVRQG 62
>pdb|2GN4|A Chain A, Crystal Structure Of Udp-Glcnac Inverting 4,6-Dehydratase
In Complex With Nadph And Udp-Glcnac
pdb|2GN4|B Chain B, Crystal Structure Of Udp-Glcnac Inverting 4,6-Dehydratase
In Complex With Nadph And Udp-Glcnac
pdb|2GN6|A Chain A, Crystal Structure Of Udp-Glcnac Inverting 4,6-Dehydratase
In Complex With Nadp And Udp-Glcnac
pdb|2GN6|B Chain B, Crystal Structure Of Udp-Glcnac Inverting 4,6-Dehydratase
In Complex With Nadp And Udp-Glcnac
pdb|2GN8|A Chain A, Crystal Structure Of Udp-Glcnac Inverting 4,6-Dehydratase
In Complex With Nadp And Udp
pdb|2GN8|B Chain B, Crystal Structure Of Udp-Glcnac Inverting 4,6-Dehydratase
In Complex With Nadp And Udp
pdb|2GN9|A Chain A, Crystal Structure Of Udp-glcnac Inverting 4,6-dehydratase
In Complex With Nadp And Udp-glc
pdb|2GN9|B Chain B, Crystal Structure Of Udp-glcnac Inverting 4,6-dehydratase
In Complex With Nadp And Udp-glc
pdb|2GNA|A Chain A, Crystal Structure Of Udp-Glcnac Inverting 4,6-Dehydratase
In Complex With Nadp And Udp-Gal
pdb|2GNA|B Chain B, Crystal Structure Of Udp-Glcnac Inverting 4,6-Dehydratase
In Complex With Nadp And Udp-Gal
Length = 344
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 22/30 (73%), Gaps = 2/30 (6%)
Query: 229 SGDFQGKCFMRNVRDESN-KKGVVHVRDEV 257
+G F GKCF+R V D +N KK +V+ RDE+
Sbjct: 30 TGSF-GKCFVRKVLDTTNAKKIIVYSRDEL 58
>pdb|1KNQ|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KNQ|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO1|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO1|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO5|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO5|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO8|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO8|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KOF|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KOF|B Chain B, Crystal Structure Of Gluconate Kinase
Length = 175
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 202 HDVRVIGIWGMGGIGKTTIASVVFHQISGDFQGKCFMRNVRD 243
HD + + G+ G GK+ +AS V HQ+ F F+ R+
Sbjct: 6 HDHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGDFLHPRRN 47
>pdb|3RGW|L Chain L, Crystal Structure At 1.5 A Resolution Of An H2-Reduced,
O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks
A Novel Iron-Sulfur Cluster
Length = 603
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 68 ASSKWCLNELVKILDSKKMNGQIVIPVFYQVDPSDVRKQKGSF 110
A+ + L ++I D + N Q V+P + P D + Q G+F
Sbjct: 527 AAPRGALGHWIRIKDGRIENYQCVVPTTWNGSPRDYKGQIGAF 569
>pdb|1KO4|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO4|B Chain B, Crystal Structure Of Gluconate Kinase
Length = 175
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 202 HDVRVIGIWGMGGIGKTTIASVVFHQISGDFQGKCFMRNVRD 243
HD + + G+ G GK+ +AS V HQ+ F F+ R+
Sbjct: 6 HDHHIYVLXGVSGSGKSAVASEVAHQLHAAFLDGDFLHPRRN 47
>pdb|2WPN|B Chain B, Structure Of The Oxidised, As-Isolated Nifese Hydrogenase
From D. Vulgaris Hildenborough
Length = 482
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%)
Query: 69 SSKWCLNELVKILDSKKMNGQIVIPVFYQVDPSDVRKQKGSFGEAFIHL 117
+ + L VK+ DSK N QIV + +P D Q+G+ EA I +
Sbjct: 406 APRGSLLHYVKVKDSKIDNYQIVSASLWNCNPRDDMGQRGAVEEALIGI 454
>pdb|2L10|A Chain A, Structure Of The Talin Rod Residues, Domain C
Length = 158
Score = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 100 PSDVRKQKGSFGE---AFIHLENNFAGKVKKWRDAVTEASNLSGYDSTESRLCL 150
P D+ + G FG+ F+ AG+ D SNL G + S+L L
Sbjct: 65 PQDLARASGRFGQDFSTFLEAGVEMAGQAPSQEDRAQVVSNLKGISMSSSKLLL 118
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 11/57 (19%)
Query: 180 LDGFVGLNSRIEDLKSLLRLELHDVRV-------IGIWGMGGIGKTTIASVVFHQIS 229
LD ++G E LK LR+ L + + ++G G+GKTT+A V+ H++
Sbjct: 11 LDEYIGQ----ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 11/57 (19%)
Query: 180 LDGFVGLNSRIEDLKSLLRLELHDVRV-------IGIWGMGGIGKTTIASVVFHQIS 229
LD ++G E LK LR+ L + + ++G G+GKTT+A V+ H++
Sbjct: 11 LDEYIGQ----ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 27.3 bits (59), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 11/57 (19%)
Query: 180 LDGFVGLNSRIEDLKSLLRLELHDVRV-------IGIWGMGGIGKTTIASVVFHQIS 229
LD ++G E LK LR+ L + + ++G G+GKTT+A V+ H++
Sbjct: 11 LDEYIGQ----ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
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
0.321 0.139 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,591,031
Number of Sequences: 62578
Number of extensions: 358618
Number of successful extensions: 930
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 918
Number of HSP's gapped (non-prelim): 18
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
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)