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= 043319
(164 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 133 bits (334), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 70/143 (48%), Positives = 94/143 (65%), Gaps = 3/143 (2%)
Query: 17 KYDVFVSFRGEDTQDNFTSHLYSTLCRQNIQTFIDD-QLNRGDEISESLVNAIEASDISV 75
KYDVF+SFRG DT+ NF S LY L R++I+TF DD +L G S L + IE S +V
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 76 IVFSESYASSRWCLDELVKILDCKKEYAQIVIPVFYRVDPSDVRNRTGSFGDSFSKLAER 135
+V SE+YA+S WCLDELV I+D +K+ + V+P+FY V+P+ VR +TG + F K A R
Sbjct: 68 VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR 127
Query: 136 LKVNTEELRSWRNALKEAATLSG 158
+ E++ WR AL A LSG
Sbjct: 128 --EDPEKVLKWRQALTNFAQLSG 148
>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 = 127 bits (319), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 68/155 (43%), Positives = 101/155 (65%), Gaps = 10/155 (6%)
Query: 8 PCVEKSGVHKYDVFVSFRGEDTQDNFTSHLYSTLCRQNIQTFIDD-QLNRGDEISESLVN 66
P VE Y+VF+SFRG DT++ FT LY +L R I TF DD +L +G EI +L+
Sbjct: 32 PSVE------YEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLR 85
Query: 67 AIEASDISVIVFSESYASSRWCLDELVKILDCKKEYA-QIVIPVFYRVDPSDVRNRTGSF 125
AI+ S I V + S YA S+WCL EL +I+ ++E +I++P+FY VDPSDVR++TG +
Sbjct: 86 AIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCY 145
Query: 126 GDSFSKLAERLKVNTEELRSWRNALKEAATLSGFH 160
+F K A K + + +++W++ALK+ L G+H
Sbjct: 146 KKAFRKHAN--KFDGQTIQNWKDALKKVGDLKGWH 178
>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 = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 56/124 (45%), Gaps = 9/124 (7%)
Query: 18 YDVFVSFRGEDTQDNFTSHLYSTLCRQNIQTFIDD-QLNRGDEISESLVNAIEASDISVI 76
+D+F+S ED D F L TL + + DD L GD + S+ + +S ++
Sbjct: 21 HDIFISHAWEDKAD-FVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIV 79
Query: 77 VFSESYASSRWCLDELVKILDCKKEYAQIVIPVFYRVDPSDVRNRTGSFGDSFSKLAERL 136
V S + W EL + + ++P++++V ++ SF + +A++L
Sbjct: 80 VLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVS----KDEVASFSPT---MADKL 132
Query: 137 KVNT 140
NT
Sbjct: 133 AFNT 136
>pdb|2J67|A Chain A, The Tir Domain Of Human Toll-Like Receptor 10 (Tlr10)
pdb|2J67|B Chain B, The Tir Domain Of Human Toll-Like Receptor 10 (Tlr10)
Length = 178
Score = 30.8 bits (68), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 51 DDQLNRGDEISESLVNAIEASDISVIVFSESYASSRWCLDEL 92
+ + G ISE++V+ IE S S+ V S ++ + WC E
Sbjct: 71 ESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQNEWCHYEF 112
>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 = 28.9 bits (63), Expect = 1.3, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 81 SYASSRWCLDELVKILDCKKEYAQIVIPVFYRVDPSDVRNRTGSFGDSF 129
+ A+ R L ++I D + E Q V+P + P D + + G+F S
Sbjct: 525 TVAAPRGALGHWIRIKDGRIENYQCVVPTTWNGSPRDYKGQIGAFEASL 573
>pdb|3JS3|A Chain A, Crystal Structure Of Type I 3-Dehydroquinate Dehydratase
(Arod) From Clostridium Difficile With Covalent Reaction
Intermediate
pdb|3JS3|B Chain B, Crystal Structure Of Type I 3-Dehydroquinate Dehydratase
(Arod) From Clostridium Difficile With Covalent Reaction
Intermediate
pdb|3JS3|C Chain C, Crystal Structure Of Type I 3-Dehydroquinate Dehydratase
(Arod) From Clostridium Difficile With Covalent Reaction
Intermediate
pdb|3JS3|D Chain D, Crystal Structure Of Type I 3-Dehydroquinate Dehydratase
(Arod) From Clostridium Difficile With Covalent Reaction
Intermediate
pdb|4H3D|A Chain A, 1.95 Angstrom Crystal Structure Of Of Type I
3-Dehydroquinate Dehydratase (Arod) From Clostridium
Difficile With Covalent Modified Comenic Acid.
pdb|4H3D|B Chain B, 1.95 Angstrom Crystal Structure Of Of Type I
3-Dehydroquinate Dehydratase (Arod) From Clostridium
Difficile With Covalent Modified Comenic Acid.
pdb|4H3D|C Chain C, 1.95 Angstrom Crystal Structure Of Of Type I
3-Dehydroquinate Dehydratase (Arod) From Clostridium
Difficile With Covalent Modified Comenic Acid.
pdb|4H3D|D Chain D, 1.95 Angstrom Crystal Structure Of Of Type I
3-Dehydroquinate Dehydratase (Arod) From Clostridium
Difficile With Covalent Modified Comenic Acid
Length = 258
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 6/72 (8%)
Query: 12 KSGVHKYDVFVSFRG--EDTQDNFTSHLYSTLCRQNIQT----FIDDQLNRGDEISESLV 65
+S +H + +FR E + + Y+TL ++ T ID +L GDE+ + +V
Sbjct: 73 RSYIHDIPLLFTFRSVVEGGEKLISRDYYTTLNKEISNTGLVDLIDVELFMGDEVIDEVV 132
Query: 66 NAIEASDISVIV 77
N ++ VI+
Sbjct: 133 NFAHKKEVKVII 144
>pdb|1C1Z|A Chain A, Crystal Structure Of Human Beta-2-Glycoprotein-I
(Apolipoprotein-H)
Length = 326
Score = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 12/77 (15%)
Query: 43 RQNIQTFIDDQLNRGDEISESLVNAIEASDISVIVFSESYASSRWCLDELVKILDCKKEY 102
R IQ + + GD++S N + SY C+D +++ C KE+
Sbjct: 260 RVKIQEKFKNGMLHGDKVSFFCKNKEKKC---------SYTEDAQCIDGTIEVPKCFKEH 310
Query: 103 AQIVIPVFYRVDPSDVR 119
+ + F++ D SDV+
Sbjct: 311 SSL---AFWKTDASDVK 324
>pdb|1G4F|A Chain A, Nmr Structure Of The Fifth Domain Of Human Beta2-
Glycoprotein I
pdb|1G4G|A Chain A, Nmr Structure Of The Fifth Domain Of Human Beta2-
Glycoprotein I
Length = 86
Score = 27.3 bits (59), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 12/77 (15%)
Query: 43 RQNIQTFIDDQLNRGDEISESLVNAIEASDISVIVFSESYASSRWCLDELVKILDCKKEY 102
R IQ + + GD++S N + SY C+D +++ C KE+
Sbjct: 20 RVKIQEKFKNGMLHGDKVSFFCKNKEKKC---------SYTEDAQCIDGTIEVPKCFKEH 70
Query: 103 AQIVIPVFYRVDPSDVR 119
+ + F++ D SDV+
Sbjct: 71 SSL---AFWKTDASDVK 84
>pdb|2KRI|A Chain A, Structure Of A Complex Between Domain V Of Beta2-
Glycoprotein I And The Fourth Ligand-Binding Module From
Ldlr Determined With Haddock
pdb|3OP8|A Chain A, Crystal Structure Of The Domain V From Beta2-Glycoprotein
I
pdb|3OP8|B Chain B, Crystal Structure Of The Domain V From Beta2-Glycoprotein
I
Length = 85
Score = 27.3 bits (59), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 12/77 (15%)
Query: 43 RQNIQTFIDDQLNRGDEISESLVNAIEASDISVIVFSESYASSRWCLDELVKILDCKKEY 102
R IQ + + GD++S N + SY C+D +++ C KE+
Sbjct: 18 RVKIQEKFKNGMLHGDKVSFFCKNKEKKC---------SYTEDAQCIDGTIEVPKCFKEH 68
Query: 103 AQIVIPVFYRVDPSDVR 119
+ + F++ D SDV+
Sbjct: 69 SSL---AFWKTDASDVK 82
>pdb|1XR7|A Chain A, Crystal Structure Of Rna-Dependent Rna Polymerase 3d From
Human Rhinovirus Serotype 16
pdb|1XR7|B Chain B, Crystal Structure Of Rna-Dependent Rna Polymerase 3d From
Human Rhinovirus Serotype 16
Length = 460
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 48 TFIDDQLNRGDEISESLVNAIEASDIS-VIVFSESYAS 84
TF+ D+L + D+I+ IEAS I+ I+F Y +
Sbjct: 156 TFLKDELRKKDKIAAGKTRVIEASSINDTILFRTVYGN 193
>pdb|1TP7|A Chain A, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|B Chain B, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|C Chain C, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|D Chain D, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
Length = 460
Score = 26.9 bits (58), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 48 TFIDDQLNRGDEISESLVNAIEASDIS-VIVFSESYAS 84
TF+ D+L + D+I+ IEAS I+ I+F Y +
Sbjct: 156 TFLKDELRKKDKIAAGKTRVIEASSINDTILFRTVYGN 193
>pdb|1ES1|A Chain A, Crystal Structure Of Val61his Mutant Of
Trypsin-Solubilized Fragment Of Cytochrome B5
Length = 82
Score = 26.2 bits (56), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 26 GEDTQDNFTSHLYSTLCRQNIQTFIDDQLNRGD 58
G D +NF H +ST R+ +TFI +L+ D
Sbjct: 49 GGDATENFEDHGHSTDARELSKTFIIGELHPDD 81
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
0.318 0.131 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,501,727
Number of Sequences: 62578
Number of extensions: 165043
Number of successful extensions: 451
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: 436
Number of HSP's gapped (non-prelim): 17
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)