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= 045657
(227 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 = 128 bits (322), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 69/144 (47%), Positives = 89/144 (61%), Gaps = 3/144 (2%)
Query: 15 NKYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAIS 73
KYDVFLSFRG DTR NF S LY L +SI+TF DD +L G S L IE S +
Sbjct: 7 TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFA 66
Query: 74 LIIFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFSKLEE 133
+++ SE YA+S WCLDELV I+ +++ + V+P+FY V+P+ VR QTG + F K
Sbjct: 67 VVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS 126
Query: 134 RFKENSEKLKSWRNALKEAASFSG 157
R E+ EK+ WR AL A SG
Sbjct: 127 R--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 = 126 bits (317), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 65/145 (44%), Positives = 97/145 (66%), Gaps = 4/145 (2%)
Query: 16 KYDVFLSFRGEDTRDNFTSHLYSALSLKSIQTF-IDDQLNRGDEISQSLVYAIENSAISL 74
+Y+VFLSFRG DTR+ FT LY +L I TF DD+L +G EI +L+ AI+ S I +
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 75 IIFSEGYASSRWCLDELVKILQCKREYA-QIVIPVFYRVDPSDVRNQTGPFGDSFSKLEE 133
I S GYA S+WCL EL +I++ + E +I++P+FY VDPSDVR+QTG + +F K
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 134 RFKENSEKLKSWRNALKEAASFSGF 158
+F + + +++W++ALK+ G+
Sbjct: 155 KF--DGQTIQNWKDALKKVGDLKGW 177
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/114 (21%), Positives = 51/114 (44%), Gaps = 2/114 (1%)
Query: 17 YDVFLSFRGEDTRDNFTSHLYSALSLKSIQTFIDD-QLNRGDEISQSLVYAIENSAISLI 75
+D+F+S ED D F L L + + DD L GD + +S+ + +S ++
Sbjct: 21 HDIFISHAWEDKAD-FVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIV 79
Query: 76 IFSEGYASSRWCLDELVKILQCKREYAQIVIPVFYRVDPSDVRNQTGPFGDSFS 129
+ S + W EL + Q + ++P++++V +V + + D +
Sbjct: 80 VLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLA 133
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 166 AEMSPRNYKNQLVGVESRVKEIESLLGA-ESKYVYTLGIWGFGGIGKTTIARAIFDKISS 224
A M P N Q +G + + + L A E+ +++++ +WG G GKTT+A I ++
Sbjct: 18 ARMRPENLA-QYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANA 76
Query: 225 NFE 227
+ E
Sbjct: 77 DVE 79
>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 = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 193 AESKYVYTLGIWGFGGIGKTTIARAIFDKISSN 225
E+K +GI G GIGKTT AR + +I+++
Sbjct: 289 GEAKEGEIIGILGPNGIGKTTFARILVGEITAD 321
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 201 LGIWGFGGIGKTTIARAIFDKISSNF 226
LG+ G G+GKTT+ + + +I NF
Sbjct: 28 LGVLGKNGVGKTTVLKILAGEIIPNF 53
>pdb|3CSK|A Chain A, Structure Of Dpp Iii From Saccharomyces Cerevisiae
Length = 711
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 50/203 (24%), Positives = 85/203 (41%), Gaps = 47/203 (23%)
Query: 14 INKYDVFLSFRGEDTRDNFTSH-LYSALSLKSIQTFIDDQLNRGDEISQSLVYAIENSAI 72
IN L+ D FTSH L+S I++ ++ G +Y +E A
Sbjct: 127 INPSSSPLTLSPVDVNHEFTSHHLFST---------INELIDIG-------IYHVEEKAA 170
Query: 73 SLIIFSEGYASSRW----CLDELVKILQCKREYAQIVIPVFYRVDP------------SD 116
L S+GY S+ + E + +L+ + ++P R++ +
Sbjct: 171 LLGFPSQGYTSAYYLGLPVTPEDMALLKEQLFAELAILPENTRINKVGENSFQIWVASEN 230
Query: 117 VRNQ---TGPFG-----DSFSKLEERFKENSEKLKSWRNALKEAASFSGFDSQNFRLAEM 168
V+NQ T P G ++ +K+E F ++S +++ + LKEA F+ D+Q L E
Sbjct: 231 VKNQITETYPSGQITLSNAVTKVEFIFGDHSREMRLVASYLKEAQKFAANDTQKAMLQE- 289
Query: 169 SPRNYKNQLVGVESRV-KEIESL 190
Y N V S+ KE + L
Sbjct: 290 ----YINHFVTGSSQAHKEAQKL 308
>pdb|4DZP|A Chain A, Crystal Structure Of The Terminase Small Subunit Gp1 With
R48a Mutation Of The Bacterial Virus Sf6
pdb|4DZP|B Chain B, Crystal Structure Of The Terminase Small Subunit Gp1 With
R48a Mutation Of The Bacterial Virus Sf6
Length = 140
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Query: 147 NALKEAASFSG----FDSQNFRLAEMSPRNY----KNQLVGVESRVKEIES 189
NA+ +AA + D++ + LA M+PR Y N+LVG + +IE+
Sbjct: 81 NAIPDAAEVAKARLRVDTRKWALARMNPRKYGDKVTNELVGKDGGAIQIET 131
>pdb|3KJE|A Chain A, Empty State Of Cooc1
pdb|3KJG|A Chain A, Adp-Bound State Of Cooc1
pdb|3KJG|B Chain B, Adp-Bound State Of Cooc1
pdb|3KJH|A Chain A, Zn-Bound State Of Cooc1
pdb|3KJI|A Chain A, Zn And Adp Bound State Of Cooc1
pdb|3KJI|B Chain B, Zn And Adp Bound State Of Cooc1
Length = 254
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 19/27 (70%)
Query: 201 LGIWGFGGIGKTTIARAIFDKISSNFE 227
L + G GG+GKTT+A + ++S+++
Sbjct: 3 LAVAGKGGVGKTTVAAGLIKIMASDYD 29
>pdb|3HEF|A Chain A, Crystal Structure Of The Bacteriophage Sf6 Terminase Small
Subunit
pdb|3HEF|B Chain B, Crystal Structure Of The Bacteriophage Sf6 Terminase Small
Subunit
Length = 143
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Query: 147 NALKEAASFSG----FDSQNFRLAEMSPRNY----KNQLVGVESRVKEIES 189
NA+ +AA + D++ + LA M+PR Y N+LVG + +IE+
Sbjct: 84 NAIPDAAEVAKARLRVDTRKWALARMNPRKYGDKVTNELVGKDGGAIQIET 134
>pdb|4DZJ|A Chain A, Crystal Structure Of The Terminase Small Subunit Gp1 With
K59e Mutation Of The Bacterial Virus Sf6
pdb|4DZJ|B Chain B, Crystal Structure Of The Terminase Small Subunit Gp1 With
K59e Mutation Of The Bacterial Virus Sf6
Length = 140
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Query: 147 NALKEAASFSG----FDSQNFRLAEMSPRNY----KNQLVGVESRVKEIES 189
NA+ +AA + D++ + LA M+PR Y N+LVG + +IE+
Sbjct: 81 NAIPDAAEVAKARLRVDTRKWALARMNPRKYGDKVTNELVGKDGGAIQIET 131
>pdb|4DYC|A Chain A, Crystal Structure Of The Terminase Small Subunit Gp1 With
D19r Mutation Of The Bacterial Virus Sf6
pdb|4DYC|B Chain B, Crystal Structure Of The Terminase Small Subunit Gp1 With
D19r Mutation Of The Bacterial Virus Sf6
pdb|4DYQ|A Chain A, High Resolution Crystal Structure Of Terminase Small
Subunit Gp1 Of The Bacterial Virus Sf6
pdb|4DYQ|B Chain B, High Resolution Crystal Structure Of Terminase Small
Subunit Gp1 Of The Bacterial Virus Sf6
pdb|4DYR|A Chain A, Crystal Structure Of Terminase Small Subunit Gp1 Of The
Bacterial Virus Sf6 With Caps Ph10.5 Buffer
pdb|4DYR|B Chain B, Crystal Structure Of Terminase Small Subunit Gp1 Of The
Bacterial Virus Sf6 With Caps Ph10.5 Buffer
Length = 140
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Query: 147 NALKEAASFSG----FDSQNFRLAEMSPRNY----KNQLVGVESRVKEIES 189
NA+ +AA + D++ + LA M+PR Y N+LVG + +IE+
Sbjct: 81 NAIPDAAEVAKARLRVDTRKWALARMNPRKYGDKVTNELVGKDGGAIQIET 131
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 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,024,255
Number of Sequences: 62578
Number of extensions: 231464
Number of successful extensions: 775
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: 763
Number of HSP's gapped (non-prelim): 14
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
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: 50 (23.9 bits)