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= 001183
(1131 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J7N|A Chain A, Structure Of The Rnai Polymerase From Neurospora Crassa
pdb|2J7N|B Chain B, Structure Of The Rnai Polymerase From Neurospora Crassa
pdb|2J7O|A Chain A, Structure Of The Rnai Polymerase From Neurospora Crassa
Length = 1022
Score = 82.4 bits (202), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 87/360 (24%), Positives = 153/360 (42%), Gaps = 47/360 (13%)
Query: 552 VTSDGNTYCFSDGIGKISLSFARQVAQKCGLSHTPSAFQIRYGGYKGVIAVDRNSFRK-- 609
++ G +DG+G++S S A+++ GL PSA Q R+G KG+ +D +
Sbjct: 318 LSPSGTGEVMNDGVGRMSRSVAKRIRDVLGLGDVPSAVQGRFGSAKGMWVIDVDDTGDED 377
Query: 610 -LSLRRSMLKFE-----SRNRMLNV-TKWSESMPCFLNREIISLLSTLG---------VK 653
+ S K+E R L V + SE LN +++ +L +
Sbjct: 378 WIETYPSQRKWECDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVKMRQAIG 437
Query: 654 DEVFEAMQQQ---QLILLGKMLINREAALDVLQK------------LNGV-DSKNILVKM 697
D + +Q+Q Q L + + R+ + L G+ DS+ +
Sbjct: 438 DRLINDLQRQFSEQKHALNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNF 497
Query: 698 LLQ-GYEPNVEPYLSMMLLSHHENQLSDLKSRCRIYVPKGRLLIGCFDETGILNYGQVFV 756
L+ G++P + YL + + + LKS+ I V + + D G+L +V V
Sbjct: 498 LMNSGFDPKKQKYLQDIAWDLQKRKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHV 557
Query: 757 RVTMTREELESKDQSFFHRVDDKTSIVKGKVLVTKNPCLHPGDVRVLEAVYEMKLEEKDY 816
+ + +++SF T + VLV ++P P D++ + AV++ +L
Sbjct: 558 GFS---SKFRDEEESF-------TLLSDCDVLVARSPAHFPSDIQRVRAVFKPELHS--L 605
Query: 817 VDCIIFPQKGERPHPNECSGGDLDGDIFFISWDNDLIPCETEPPMDYTGRRSRIMDHDVT 876
D IIF KG+ P + SGGD DGD+ ++ WD +++ M SR + D T
Sbjct: 606 KDVIIFSTKGDVPLAKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYLKKDKT 665
>pdb|1IIR|A Chain A, Crystal Structure Of Udp-Glucosyltransferase Gtfb
Length = 415
Score = 36.2 bits (82), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 55/120 (45%), Gaps = 14/120 (11%)
Query: 919 LATLHSMAVDFAKTGA---PAEMPLALKPKEFPDFMEREDKPRYISFGVLGKLYRATLDS 975
LA L +D +TGA P E PL+ E F++ P Y+ FG LG A +
Sbjct: 202 LAPLQPTDLDAVQTGAWILPDERPLS---PELAAFLDAGPPPVYLGFGSLGAPADAVRVA 258
Query: 976 IMQIRSNA---IWSEKIAEASYDHDLEVDGFEAFLGVAESHKEMYEEEMNALMNYYGAST 1032
I IR++ I S A D L DG + F + E + ++ + A++++ GA T
Sbjct: 259 IDAIRAHGRRVILSRGWA----DLVLPDDGADCF-AIGEVNHQVLFGRVAAVIHHGGAGT 313
>pdb|2IK8|B Chain B, Crystal Structure Of The Heterodimeric Complex Of Human
Rgs16 And Activated Gi Alpha 1
pdb|2IK8|D Chain D, Crystal Structure Of The Heterodimeric Complex Of Human
Rgs16 And Activated Gi Alpha 1
Length = 140
Score = 33.1 bits (74), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 500 EVSAEDVRGWMGC--FNKIRSVSKCAARMGQLF 530
E S E++ W+ C F KIRS +K A+R Q+F
Sbjct: 36 EFSEENLEFWLACEEFKKIRSATKLASRAHQIF 68
>pdb|2BT2|A Chain A, Structure Of The Regulator Of G-Protein Signaling 16
pdb|2BT2|B Chain B, Structure Of The Regulator Of G-Protein Signaling 16
pdb|2BT2|C Chain C, Structure Of The Regulator Of G-Protein Signaling 16
pdb|2BT2|D Chain D, Structure Of The Regulator Of G-Protein Signaling 16
pdb|2BT2|E Chain E, Structure Of The Regulator Of G-Protein Signaling 16
Length = 161
Score = 33.1 bits (74), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 500 EVSAEDVRGWMGC--FNKIRSVSKCAARMGQLF 530
E S E++ W+ C F KIRS +K A+R Q+F
Sbjct: 57 EFSEENLEFWLACEEFKKIRSATKLASRAHQIF 89
>pdb|1F09|A Chain A, Crystal Structure Of The Green Fluorescent Protein (Gfp)
Variant Yfp-H148q With Two Bound Iodides
pdb|1F0B|A Chain A, Crystal Structure Of The Green Fluorescent Protein (Gfp)
Variant Yfp-H148q
Length = 236
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 46/108 (42%), Gaps = 16/108 (14%)
Query: 41 DRSNWKSRG---------IGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI-SETHSDIV 90
D N+K+R + R++ +DFK L + +NSQN+ I ++ + +
Sbjct: 100 DDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSQNVYIMADKQKNGI 159
Query: 91 PRPVKAQHRVEDGVLHVGVMCKEERLRVLQTFEGVRGWLLPDRRRLEF 138
K +H +EDG + + ++ T G LLPD L +
Sbjct: 160 KVNFKIRHNIEDGSVQLADHYQQ------NTPIGDGPVLLPDNHYLSY 201
>pdb|2AWJ|A Chain A, Gfp R96m Pre-Cyclized Intermediate In Chromophore
Formation
Length = 230
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 29/125 (23%), Positives = 52/125 (41%), Gaps = 17/125 (13%)
Query: 23 FLESKLGKNSVFALEI-ITDRSNWKSRG---------IGRVQFTSLDFKSKAQNLSLNDK 72
F +S + + V + I D N+K+R + R++ +DFK L +
Sbjct: 84 FFKSAMPEGYVQEMTISFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLE 143
Query: 73 LVFNSQNLKIS-ETHSDIVPRPVKAQHRVEDGVLHVGVMCKEERLRVLQTFEGVRGWLLP 131
+NS N+ I+ + + + K +H +EDG + + ++ T G LLP
Sbjct: 144 YNYNSHNVYITADKQKNGIKANFKIRHNIEDGSVQLADHYQQ------NTPIGDGPVLLP 197
Query: 132 DRRRL 136
D L
Sbjct: 198 DNHYL 202
>pdb|2AWK|A Chain A, Gfp R96m Mature Chromophore
Length = 228
Score = 31.2 bits (69), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 29/125 (23%), Positives = 52/125 (41%), Gaps = 17/125 (13%)
Query: 23 FLESKLGKNSVFALEI-ITDRSNWKSRG---------IGRVQFTSLDFKSKAQNLSLNDK 72
F +S + + V + I D N+K+R + R++ +DFK L +
Sbjct: 82 FFKSAMPEGYVQEMTISFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLE 141
Query: 73 LVFNSQNLKIS-ETHSDIVPRPVKAQHRVEDGVLHVGVMCKEERLRVLQTFEGVRGWLLP 131
+NS N+ I+ + + + K +H +EDG + + ++ T G LLP
Sbjct: 142 YNYNSHNVYITADKQKNGIKANFKIRHNIEDGSVQLADHYQQ------NTPIGDGPVLLP 195
Query: 132 DRRRL 136
D L
Sbjct: 196 DNHYL 200
>pdb|1BFP|A Chain A, Blue Variant Of Green Fluorescent Protein
Length = 236
Score = 31.2 bits (69), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 10/77 (12%)
Query: 41 DRSNWKSRG---------IGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI-SETHSDIV 90
D N+K+R + R++ +DFK L + FNS N+ I ++ + +
Sbjct: 100 DDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNFNSHNVYIMADKQKNGI 159
Query: 91 PRPVKAQHRVEDGVLHV 107
K +H +EDG + +
Sbjct: 160 KVNFKIRHNIEDGSVQL 176
>pdb|1KYP|A Chain A, Crystal Structure Of An Apo Green Fluorescent Protein Zn
Biosensor
pdb|1KYR|A Chain A, Crystal Structure Of A Cu-Bound Green Fluorescent Protein
Zn Biosensor
pdb|1KYS|A Chain A, Crystal Structure Of A Zn-Bound Green Fluorescent Protein
Biosensor
Length = 237
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 10/77 (12%)
Query: 41 DRSNWKSRG---------IGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS-ETHSDIV 90
D N+K+R + R++ +DFK L + FNS N+ I+ + + +
Sbjct: 101 DDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNFNSGNVYITADKQKNGI 160
Query: 91 PRPVKAQHRVEDGVLHV 107
K +H +EDG + +
Sbjct: 161 KANFKIRHNIEDGSVQL 177
>pdb|4GES|B Chain B, Crystal Structure Of Gfp-Tyr151pyz With An Unnatural Amino
Acid Incorporation
Length = 246
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 25/106 (23%), Positives = 44/106 (41%), Gaps = 16/106 (15%)
Query: 41 DRSNWKSRG---------IGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS-ETHSDIV 90
D N+K+R + R++ +DFK L + +NS N+ I+ + + +
Sbjct: 102 DDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVXITADKQKNGI 161
Query: 91 PRPVKAQHRVEDGVLHVGVMCKEERLRVLQTFEGVRGWLLPDRRRL 136
K +H +EDG + + ++ T G LLPD L
Sbjct: 162 KANFKIRHNIEDGSVQLADHYQQ------NTPIGDGPVLLPDNHYL 201
>pdb|2B3P|A Chain A, Crystal Structure Of A Superfolder Green Fluorescent
Protein
Length = 244
Score = 29.6 bits (65), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 50 IGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS-ETHSDIVPRPVKAQHRVEDGVLHV 107
+ R++ +DFK L + FNS N+ I+ + + + K +H VEDG + +
Sbjct: 118 VNRIELKGIDFKEDGNILGHKLEYNFNSHNVYITADKQKNGIKANFKIRHNVEDGSVQL 176
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 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 32,959,739
Number of Sequences: 62578
Number of extensions: 1367008
Number of successful extensions: 3169
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 3165
Number of HSP's gapped (non-prelim): 13
length of query: 1131
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1022
effective length of database: 8,152,335
effective search space: 8331686370
effective search space used: 8331686370
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: 57 (26.6 bits)