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= 041067
(770 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 = 86.3 bits (212), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 57/150 (38%), Positives = 86/150 (57%), Gaps = 14/150 (9%)
Query: 6 NFQLKVYKVAELIKR--------RGVHGGDEISKSLVNVIEASAISVIVFSEGYASSRSC 57
NF +YK EL++R + + G S L + IE S +V+V SE YA+S C
Sbjct: 23 NFISFLYK--ELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWC 80
Query: 58 LDELVKILECKKEYAQIVIPFFYRVDPSDVRNQTGSFGDSFSKLEERLKENTEKLRSWRK 117
LDELV I++ +K+ + V+P FY V+P+ VR QTG + F K R E+ EK+ WR+
Sbjct: 81 LDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR--EDPEKVLKWRQ 138
Query: 118 ALKEAASLSGFLSLNIRHESEFINEVGNDI 147
AL A LSG S + +S+ ++++ N+I
Sbjct: 139 ALTNFAQLSGDCSGD--DDSKLVDKIANEI 166
>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 = 79.7 bits (195), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 48/144 (33%), Positives = 77/144 (53%), Gaps = 3/144 (2%)
Query: 9 LKVYKVAELIKRRGVHGGDEISKSLVNVIEASAISVIVFSEGYASSRSCLDELVKILECK 68
L+ YK+ + G EI +L+ I+ S I V + S GYA S+ CL EL +I+ +
Sbjct: 59 LRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQ 118
Query: 69 KEYAQ-IVIPFFYRVDPSDVRNQTGSFGDSFSKLEERLKENTEKLRSWRKALKEAASLSG 127
+E + I++P FY VDPSDVR+QTG + +F K + T +++W+ ALK+ L G
Sbjct: 119 EEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDGQT--IQNWKDALKKVGDLKG 176
Query: 128 FLSLNIRHESEFINEVGNDILKRL 151
+ + ++V DI +
Sbjct: 177 WHIGKNDKQGAIADKVSADIWSHI 200
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 41/130 (31%), Positives = 54/130 (41%), Gaps = 22/130 (16%)
Query: 599 PMLMPRLNKLVLLNLRGSKSLKRLPSRIFNLEFLTKLNLSGCSKLKRLPEISSGNISWLF 658
P + L L L +R S L L I +L L +L+L GC+ L+ P I G
Sbjct: 199 PASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP--- 254
Query: 659 LRETAIEELPSSIERLHRLGYLDLLDCKRLKSLPRSLWMLKSLGVLNLSGCSNLQRLPEC 718
L L L DC L +LP + L L L+L GC NL RLP
Sbjct: 255 ------------------LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
Query: 719 LAQFSSPIIL 728
+AQ + I+
Sbjct: 297 IAQLPANCII 306
Score = 34.3 bits (77), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 44/109 (40%), Gaps = 6/109 (5%)
Query: 609 VLLNLRGSKSLKRLPSRIFNLEFLTKLNLSGCSKLKRLPEISS--GNISWLFLRETAIEE 666
V L LR S L + P + F L L + L LP+ + L L +
Sbjct: 84 VALELR-SVPLPQFPDQAFRLSHLQHXTIDAAG-LXELPDTXQQFAGLETLTLARNPLRA 141
Query: 667 LPSSIERLHRLGYLDLLDCKRLKSLPRSLWMLKSLGVLNLSGCSNLQRL 715
LP+SI L+RL L + C L LP L + G G NLQ L
Sbjct: 142 LPASIASLNRLRELSIRACPELTELPEPLASTDASG--EHQGLVNLQSL 188
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 38.9 bits (89), Expect = 0.012, Method: Composition-based stats.
Identities = 35/91 (38%), Positives = 49/91 (53%), Gaps = 10/91 (10%)
Query: 610 LLNLR----GSKSLKRLPSRIFN-LEFLTKLNLSGCSKLKRLPEISSG---NISWLFLRE 661
L+NL+ GS L LP +F+ L LT L+L G ++L LP ++ LF+
Sbjct: 63 LINLKELYLGSNQLGALPVGVFDSLTQLTVLDL-GTNQLTVLPSAVFDRLVHLKELFMCC 121
Query: 662 TAIEELPSSIERLHRLGYLDLLDCKRLKSLP 692
+ ELP IERL L +L LD +LKS+P
Sbjct: 122 NKLTELPRGIERLTHLTHL-ALDQNQLKSIP 151
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 37.7 bits (86), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 54/115 (46%), Gaps = 29/115 (25%)
Query: 653 NISWLFLRETAIEELPSSIERLHRLG--YLDLLDCKRLKSLPRS-----------LWMLK 699
N+ +L + T I+ LP + ++H L LD+ D + ++ R+ LW+ K
Sbjct: 105 NLQYLLISNTGIKHLPD-VHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK 163
Query: 700 S--------------LGVLNLSGCSNLQRLP-ECLAQFSSPIILNLAKTNIERIP 739
+ L LNLS +NL+ LP + S P+IL++++T I +P
Sbjct: 164 NGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLP 218
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 37.4 bits (85), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 54/115 (46%), Gaps = 29/115 (25%)
Query: 653 NISWLFLRETAIEELPSSIERLHRLG--YLDLLDCKRLKSLPRS-----------LWMLK 699
N+ +L + T I+ LP + ++H L LD+ D + ++ R+ LW+ K
Sbjct: 105 NLQYLLISNTGIKHLPD-VHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK 163
Query: 700 S--------------LGVLNLSGCSNLQRLP-ECLAQFSSPIILNLAKTNIERIP 739
+ L LNLS +NL+ LP + S P+IL++++T I +P
Sbjct: 164 NGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLP 218
>pdb|1P22|A Chain A, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex:
Destruction Motif Binding And Lysine Specificity On The
Scfbeta-Trcp1 Ubiquitin Ligase
Length = 435
Score = 36.2 bits (82), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 47/192 (24%), Positives = 75/192 (39%), Gaps = 41/192 (21%)
Query: 203 RAIFDKISGDFE--------GSCFLENVREESQRSGGLSCLQ---QKLLSNLLKHKNVMP 251
RA++ KI D E G L+ + S+ S G+ CLQ QK++S L
Sbjct: 99 RALYPKIIQDIETIESNWRCGRHSLQRIHCRSETSKGVYCLQYDDQKIVSGL-------- 150
Query: 252 FIDLIFRRLSRMKVLIVFDDVT--CLSQLQSLIGSLYWLTPVSRIIITTRNKQVLRNWGV 309
R + ++D T C L GS+ L R+IIT + +R W V
Sbjct: 151 ----------RDNTIKIWDKNTLECKRILTGHTGSVLCLQYDERVIITGSSDSTVRVWDV 200
Query: 310 RKIYEMKALEYHHAIELFIMKYAQGVPLALKVLGCFLYEREKEVWESAID---KLQRILL 366
EM HH + +++ G+ + +R VW+ A L+R+L+
Sbjct: 201 -NTGEMLNTLIHHCEAVLHLRFNNGMMVTCS------KDRSIAVWDMASPTDITLRRVLV 253
Query: 367 ASIFEVLKISYD 378
V + +D
Sbjct: 254 GHRAAVNVVDFD 265
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 46/118 (38%), Positives = 58/118 (49%), Gaps = 26/118 (22%)
Query: 618 SLKRLPSRIFNL----EFLTKLNLSGCSKLKRLPEISSGNISWLFLRETAIEELPSSIER 673
SL LPS ++ L LT L + S LK L I SGN R T++ LPS ++
Sbjct: 195 SLPTLPSELYKLWAYNNRLTSLP-ALPSGLKEL--IVSGN------RLTSLPVLPSELKE 245
Query: 674 LHRLGYLDLLDCKRLKSLPRSLWMLKSLGVLNLSGCSN-LQRLPECLAQFSSPIILNL 730
L ++ RL SLP ML S G+L+LS N L RLPE L SS +NL
Sbjct: 246 L-------MVSGNRLTSLP----MLPS-GLLSLSVYRNQLTRLPESLIHLSSETTVNL 291
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 29.6 bits (65), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 33/106 (31%), Positives = 46/106 (43%), Gaps = 35/106 (33%)
Query: 598 NPMLMPRLNK--------LVLLNLRGSKSLKRLPSRIFNLEFLTKLNLSGCSKLKRLPEI 649
N M+MP+ +K L L NL+ + + + IF +FLT+L L+G S
Sbjct: 211 NRMVMPKDSKYDDQLWHALDLSNLQ----IFNISANIFKYDFLTRLYLNGNS-------- 258
Query: 650 SSGNISWLFLRETAIEELPSSIERLHRLGYLDLLDCKRLKSLPRSL 695
+ ELP+ I+ L L LD L RL SLP L
Sbjct: 259 --------------LTELPAEIKNLSNLRVLD-LSHNRLTSLPAEL 289
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 0.138 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,270,993
Number of Sequences: 62578
Number of extensions: 857292
Number of successful extensions: 2217
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 2185
Number of HSP's gapped (non-prelim): 56
length of query: 770
length of database: 14,973,337
effective HSP length: 106
effective length of query: 664
effective length of database: 8,340,069
effective search space: 5537805816
effective search space used: 5537805816
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)