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= 037723
(714 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T6D|M Chain M, Crystal Structure Of The Reaction Centre From
Blastochloris Viridis Strain Dsm 133 (Atcc 19567)
Substrain-08
Length = 323
Score = 34.3 bits (77), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%)
Query: 386 EIDSPYKSVMLVAVFRDANNAILPIAFCEVQEENFDSWSFFLKNLYEGLCMDYMDYGKGI 445
+I Y +A F AIL I F + E +FD FF + + GL YG GI
Sbjct: 45 QIGPIYLGASGIAAFAFGATAILIIGFNMLAEVHFDPLQFFRQFFWLGLYPPKAQYGMGI 104
Query: 446 CIMCD 450
+ D
Sbjct: 105 PPLHD 109
>pdb|3T6E|M Chain M, Crystal Structure Of The Reaction Centre From
Blastochloris Viridis Strain Dsm 133 (Atcc 19567)
Substrain-94
Length = 323
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%)
Query: 386 EIDSPYKSVMLVAVFRDANNAILPIAFCEVQEENFDSWSFFLKNLYEGLCMDYMDYGKGI 445
+I Y +A F + AIL I F E +FD FF + + GL YG GI
Sbjct: 45 QIGPIYLGASGIAAFAFGSTAILIILFNMAAEVHFDPLQFFRQFFWLGLYPPKAQYGMGI 104
Query: 446 CIMCD 450
+ D
Sbjct: 105 PPLHD 109
>pdb|4AC5|M Chain M, Lipidic Sponge Phase Crystal Structure Of The Bl. Viridis
Reaction Centre Solved Using Serial Femtosecond
Crystallography
Length = 324
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%)
Query: 386 EIDSPYKSVMLVAVFRDANNAILPIAFCEVQEENFDSWSFFLKNLYEGLCMDYMDYGKGI 445
+I Y +A F + AIL I F E +FD FF + + GL YG GI
Sbjct: 46 QIGPIYLGASGIAAFAFGSTAILIILFNMAAEVHFDPLQFFRQFFWLGLYPPKAQYGMGI 105
Query: 446 CIMCD 450
+ D
Sbjct: 106 PPLHD 110
>pdb|1PRC|M Chain M, Crystallographic Refinement At 2.3 Angstroms Resolution
And Refined Model Of The Photosynthetic Reaction Center
From Rhodopseudomonas Viridis
pdb|2PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Ubiquinone-2 Complex)
pdb|3PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Qb- Depleted)
pdb|5PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Atrazine Complex)
pdb|6PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Dg- 420314 (Triazine) Complex)
pdb|7PRC|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis (Dg- 420315 (Triazine) Complex)
pdb|1DXR|M Chain M, Photosynthetic Reaction Center From Rhodopseudomonas
Viridis - His L168 Phe Mutant (Terbutryn Complex)
pdb|1R2C|M Chain M, Photosynthetic Reaction Center Blastochloris Viridis
(Atcc)
pdb|1VRN|M Chain M, Photosynthetic Reaction Center Blastochloris Viridis
(Atcc)
pdb|2I5N|M Chain M, 1.96 A X-Ray Structure Of Photosynthetic Reaction Center
From Rhodopseudomonas Viridis:crystals Grown By
Microfluidic Technique
pdb|2JBL|M Chain M, Photosynthetic Reaction Center From Blastochloris Viridis
pdb|3D38|M Chain M, Crystal Structure Of New Trigonal Form Of Photosynthetic
Reaction Center From Blastochloris Viridis. Crystals
Grown In Microfluidics By Detergent Capture
Length = 323
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%)
Query: 386 EIDSPYKSVMLVAVFRDANNAILPIAFCEVQEENFDSWSFFLKNLYEGLCMDYMDYGKGI 445
+I Y +A F + AIL I F E +FD FF + + GL YG GI
Sbjct: 45 QIGPIYLGASGIAAFAFGSTAILIILFNMAAEVHFDPLQFFRQFFWLGLYPPKAQYGMGI 104
Query: 446 CIMCD 450
+ D
Sbjct: 105 PPLHD 109
>pdb|2WJM|M Chain M, Lipidic Sponge Phase Crystal Structure Of The
Photosynthetic Reaction Centre From Blastochloris
Viridis (Low Dose)
pdb|2WJN|M Chain M, Lipidic Sponge Phase Crystal Structure Of Photosynthetic
Reaction Centre From Blastochloris Viridis (High Dose)
pdb|2X5U|M Chain M, 80 Microsecond Laue Diffraction Snapshot From Crystals Of
A Photosynthetic Reaction Centre Without Illumination.
pdb|2X5V|M Chain M, 80 Microsecond Laue Diffraction Snapshot From Crystals Of
A Photosynthetic Reaction Centre 3 Millisecond Following
Photoactivation
Length = 324
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%)
Query: 386 EIDSPYKSVMLVAVFRDANNAILPIAFCEVQEENFDSWSFFLKNLYEGLCMDYMDYGKGI 445
+I Y +A F + AIL I F E +FD FF + + GL YG GI
Sbjct: 46 QIGPIYLGASGIAAFAFGSTAILIILFNMAAEVHFDPLQFFRQFFWLGLYPPKAQYGMGI 105
Query: 446 CIMCD 450
+ D
Sbjct: 106 PPLHD 110
>pdb|3G7F|M Chain M, Crystal Structure Of Blastochloris Viridis Heterodimer
Mutant Reaction Center
Length = 323
Score = 33.9 bits (76), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%)
Query: 386 EIDSPYKSVMLVAVFRDANNAILPIAFCEVQEENFDSWSFFLKNLYEGLCMDYMDYGKGI 445
+I Y +A F + AIL I F E +FD FF + + GL YG GI
Sbjct: 45 QIGPIYLGASGIAAFAFGSTAILIILFNMAAEVHFDPLQFFRQFFWLGLYPPKAQYGMGI 104
Query: 446 CIMCD 450
+ D
Sbjct: 105 PPLHD 109
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 33.1 bits (74), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 57/147 (38%), Gaps = 18/147 (12%)
Query: 147 WEGYEDDLFQNVFDKKDERS--------CIAG----FVFEKGGTSGIIIKLGHKFKDEFQ 194
W G D+ QNVF + R +AG V GG + +L D F
Sbjct: 28 WSGKVKDILQNVFKLEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPALCSDGFT 87
Query: 195 FRTAVDIQAMRDGIKLCVMEN---TSTFISCECSDLMCDWKVSAAKVRKSNVFVLKEITP 251
I M D +L V++ ++T ++ S W V A V K++ L +TP
Sbjct: 88 LVICPLISLMED--QLMVLKQLGISATMLNASSSKEHVKW-VHAEMVNKNSELKLIYVTP 144
Query: 252 NYTCKRRTYKFPLGRKWNAAKFLHLWV 278
K + + L + + A +F + V
Sbjct: 145 EKIAKSKMFMSRLEKAYEARRFTRIAV 171
>pdb|2XQN|T Chain T, Complex Of The 2nd And 3rd Lim Domains Of Tes With The
Evh1 Domain Of Mena And The N-Terminal Domain Of
Actin-Like Protein Arp7a
Length = 126
Score = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 569 SYLAGWDWVRDNITPAARQQTIQN---VIEGDRWNIHSGANSNILTVTMNGLSFVVNKEL 625
S LAG +V N P + ++N V +G H+ + + VT N S+ + E
Sbjct: 38 SILAGEIYVMVNDKPVCKPCYVKNHAVVCQG----CHNAIDPEVQRVTYNNFSWHASTEC 93
Query: 626 SVCSCCLWQLSG 637
+CSCC L G
Sbjct: 94 FLCSCCSKCLIG 105
>pdb|3PIH|A Chain A, T. Maritima Uvra In Complex With Fluorescein-Modified Dna
Length = 916
Score = 30.0 bits (66), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 6/54 (11%)
Query: 430 LYEGLCMDYMDYGKGICIMCDR---DNGVDEAVSDLYNKLKEQ---FPLAPVYS 477
+Y+ L + Y GK C C R +DE + DL+N KE + LAPV +
Sbjct: 104 IYDYLRVLYARIGKAHCPECGRPLEKKSIDEILQDLFNSFKEGSRIYILAPVAT 157
>pdb|3S4L|A Chain A, The Crispr-Associated Cas3 Hd Domain Protein Mj0384 From
Methanocaldococcus Jannaschii
Length = 244
Score = 29.3 bits (64), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 46/98 (46%), Gaps = 3/98 (3%)
Query: 268 WNAAKFLHLWVQNPNIDFHRLRYEIETYSGFKYPTWKLEAIDKTAKLWLRTYHNYGYERL 327
W K+ +L ++ ++ +IE F KL I K +K++ R N E+L
Sbjct: 28 WERIKYRYLKTIKRALEALNIKLDIEKVDEFMKILIKLHDIGKASKIYQRAIIN-DQEKL 86
Query: 328 FQYKNEMLTVNSNNIVIIQKKTFDDPDLAVFDRMFVLF 365
+++E+++ ++++K F D +LA + V+
Sbjct: 87 MGFRHELVSAYYTYHILLKK--FGDKNLAFIGALTVML 122
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
0.322 0.136 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,224,235
Number of Sequences: 62578
Number of extensions: 946215
Number of successful extensions: 2153
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 2147
Number of HSP's gapped (non-prelim): 17
length of query: 714
length of database: 14,973,337
effective HSP length: 106
effective length of query: 608
effective length of database: 8,340,069
effective search space: 5070761952
effective search space used: 5070761952
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)