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= 000887
(1237 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 1e-04, Method: Composition-based stats.
Identities = 37/120 (30%), Positives = 59/120 (49%), Gaps = 10/120 (8%)
Query: 932 SLTCLWSGGR-LPVT------LKRLRIEDCSNFKVLTSECQLPVEVEELTIYGCSNLESI 984
SL W+G R LP + LK L+I + + + LP ++EEL + GC+ L +
Sbjct: 187 SLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLP-KLEELDLRGCTALRNY 245
Query: 985 AERFHDDACLRSIWISSCENLKSLPKGLSNLSHLHEIRIVRCHNLVSLPE--DALPSNVV 1042
F A L+ + + C NL +LP + L+ L ++ + C NL LP LP+N +
Sbjct: 246 PPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCI 305
Score = 40.4 bits (93), Expect = 0.006, Method: Composition-based stats.
Identities = 34/98 (34%), Positives = 42/98 (42%)
Query: 402 LRVLSLGSYCITEVPISIGCLKQLRYLNFSRSEIQCLPDAICSLFNLEILILRNCWCLLK 461
L+ L L I +P SI L+ L+ L S + L AI L LE L LR C L
Sbjct: 185 LQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRN 244
Query: 462 LPSRIGNLVNLHYLNIEGASALRELPLGMKELKCLRTL 499
P G L L ++ S L LPL + L L L
Sbjct: 245 YPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKL 282
Score = 39.3 bits (90), Expect = 0.016, Method: Composition-based stats.
Identities = 29/97 (29%), Positives = 48/97 (49%), Gaps = 10/97 (10%)
Query: 412 ITEVPISIGCLKQLRYLNFSRSEIQCLPDAICSLFNLEILILRNCWCLLKLPSRIGN--- 468
+ E+P + L L +R+ ++ LP +I SL L L +R C L +LP + +
Sbjct: 116 LXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDA 175
Query: 469 ------LVNLHYLNIEGASALRELPLGMKELKCLRTL 499
LVNL L +E + +R LP + L+ L++L
Sbjct: 176 SGEHQGLVNLQSLRLEW-TGIRSLPASIANLQNLKSL 211
Score = 37.4 bits (85), Expect = 0.048, Method: Composition-based stats.
Identities = 53/191 (27%), Positives = 77/191 (40%), Gaps = 27/191 (14%)
Query: 1005 LKSLPKGLSNLSHLHEIRIVRCHNLVSLPEDALPSNVVDVLIEDCDKLKALIPTGTLSSL 1064
L++LP +++L+ L E+ I C L LPE P D E + L+ L SL
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPE---PLASTDASGEH----QGLV---NLQSL 188
Query: 1065 RELALSECPGIVVFPEEGLS-TNLTDLEISGDNMYKPLVKWG--FHKLTSLRKLYIDGCS 1121
R E GI P + NL L+I PL G H L L +L + GC+
Sbjct: 189 R----LEWTGIRSLPASIANLQNLKSLKIRN----SPLSALGPAIHHLPKLEELDLRGCT 240
Query: 1122 DAVSFPDVGKGVILPTSLTSITISDFPKLKRLSSKGFQYLVSLEHLSVFSCPNFTSFPE- 1180
++P + G L + + D L L L LE L + C N + P
Sbjct: 241 ALRNYPPIFGG---RAPLKRLILKDCSNLLTLPLD-IHRLTQLEKLDLRGCVNLSRLPSL 296
Query: 1181 -AGFPSSLLSL 1190
A P++ + L
Sbjct: 297 IAQLPANCIIL 307
Score = 34.7 bits (78), Expect = 0.39, Method: Composition-based stats.
Identities = 31/112 (27%), Positives = 50/112 (44%), Gaps = 9/112 (8%)
Query: 788 EGFVNEICLEKPLQGLQRLTC-------LKDLLIGNCPTVVSLPKACFLPNLSEITIQDC 840
+G VN L G++ L LK L I N P P LP L E+ ++ C
Sbjct: 180 QGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGC 239
Query: 841 NALASLTDGMIYNNARLEVLRIKRCDSLTSISRE-HLPSSLQAIEIRDCETL 891
AL + + A L+ L +K C +L ++ + H + L+ +++R C L
Sbjct: 240 TALRNYPP-IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNL 290
Score = 33.9 bits (76), Expect = 0.64, Method: Composition-based stats.
Identities = 32/107 (29%), Positives = 46/107 (42%), Gaps = 8/107 (7%)
Query: 622 SLP-SLGQLCSLKDLTIVGMSELKSIGSEIYGEGCSKPFQSLQTLYFEDLQEWEHWEPNR 680
+LP S+ L L++L+I EL + + S Q L L L+ W R
Sbjct: 141 ALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLE----WTGIR 196
Query: 681 DNDEHVQAFPRLRKLSIKKCPKLSGRLP--NHLPSLEEIVIAGCMHL 725
+ L+ L I+ P LS P +HLP LEE+ + GC L
Sbjct: 197 SLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTAL 242
Score = 32.7 bits (73), Expect = 1.3, Method: Composition-based stats.
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 422 LKQLRYLNFSRSEIQCLPDAICSLFNLEILILRNCWCLLKLPSRIGNLVNLHYLNIEGAS 481
L L+ L + I+ LP +I +L NL+ L +RN L L I +L L L++ G +
Sbjct: 182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCT 240
Query: 482 ALRELP 487
ALR P
Sbjct: 241 ALRNYP 246
>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 = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 49/104 (47%), Gaps = 9/104 (8%)
Query: 402 LRVLSLGSYCITEVPISIGCLKQLRYLNFSRSEIQCLPDAICSLFNLEILILRNCWCLLK 461
L L L +TE+P I L LR L+ S + + LP + S F L+ + +
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDN-MVTT 307
Query: 462 LPSRIGNLVNLHYLNIEGASALRELPLGMKELKCL--RTLTNFI 503
LP GNL NL +L +EG PL + LK L +++T I
Sbjct: 308 LPWEFGNLCNLQFLGVEGN------PLEKQFLKILTEKSVTGLI 345
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 33.9 bits (76), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 32/109 (29%), Positives = 51/109 (46%), Gaps = 8/109 (7%)
Query: 396 LPQCKKLRVLSLG-SYCITEVPISIGCLKQLR----YLNFSRSEIQCLPDAICSLFNLEI 450
L C +L L L +Y +P S+G L +LR +LN EI P + + LE
Sbjct: 411 LSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEI---PQELMYVKTLET 467
Query: 451 LILRNCWCLLKLPSRIGNLVNLHYLNIEGASALRELPLGMKELKCLRTL 499
LIL ++PS + N NL+++++ E+P + L+ L L
Sbjct: 468 LILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAIL 516
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 33.9 bits (76), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 32/109 (29%), Positives = 51/109 (46%), Gaps = 8/109 (7%)
Query: 396 LPQCKKLRVLSLG-SYCITEVPISIGCLKQLR----YLNFSRSEIQCLPDAICSLFNLEI 450
L C +L L L +Y +P S+G L +LR +LN EI P + + LE
Sbjct: 414 LSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEI---PQELMYVKTLET 470
Query: 451 LILRNCWCLLKLPSRIGNLVNLHYLNIEGASALRELPLGMKELKCLRTL 499
LIL ++PS + N NL+++++ E+P + L+ L L
Sbjct: 471 LILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAIL 519
>pdb|2A0U|A Chain A, Crystal Structure Of The Eukaryotic Initiation Factor 2b
From Leishmania Major At 2.1 A Resolution
pdb|2A0U|B Chain B, Crystal Structure Of The Eukaryotic Initiation Factor 2b
From Leishmania Major At 2.1 A Resolution
Length = 383
Score = 32.0 bits (71), Expect = 2.0, Method: Composition-based stats.
Identities = 30/86 (34%), Positives = 43/86 (50%), Gaps = 14/86 (16%)
Query: 62 AILDSIKRSSCKLEDLNSVQLELKETVFKKKFLIVLDDVWSERYDLWQALKSPFMAGAPG 121
A L+SIK + L L+ +L L ETVF DDV + D+W A+K + GAP
Sbjct: 16 ATLESIKYTPGSLRLLDQRKLPL-ETVF--------DDVLTVE-DIWSAIKEXRVRGAPA 65
Query: 122 SRIIVTTRSMDVAL-TMGSGKNYELK 146
I + ++ +A+ T N ELK
Sbjct: 66 ---IAVSAALGIAVATQRKAANGELK 88
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 45/177 (25%), Positives = 83/177 (46%), Gaps = 20/177 (11%)
Query: 953 DCSNFKVLTSECQLPVEVEELTIYGCSNLESIAER-FHDDACLRSIWISSCENLKSLPKG 1011
DCS+ K+ +P + ++L + + L S+ + FH LR ++++ L++LP G
Sbjct: 22 DCSSKKLTAIPSNIPADTKKLDLQS-NKLSSLPSKAFHRLTKLRLLYLND-NKLQTLPAG 79
Query: 1012 LSNLSHLHEIRIVRCHNLVSLPEDALPSNVVDVLIE------DCDKLKALIPT--GTLSS 1063
+ E++ + + ALP V D L+ D ++LK+L P +L+
Sbjct: 80 I-----FKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTK 134
Query: 1064 LRELALSECPGIVVFPEEGLS--TNLTDLEISGDNMYKPLVKWGFHKLTSLRKLYID 1118
L L+L + P+ T+L +L + +N K + + F KLT L+ L +D
Sbjct: 135 LTYLSLGYNE-LQSLPKGVFDKLTSLKELRLY-NNQLKRVPEGAFDKLTELKTLKLD 189
>pdb|4AKK|A Chain A, Structure Of The Nasr Transcription Antiterminator
pdb|4AKK|B Chain B, Structure Of The Nasr Transcription Antiterminator
Length = 423
Score = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 51/104 (49%), Gaps = 10/104 (9%)
Query: 36 DKLTEAFEPKAWVCVSD---DFDVLRISKAILDSIKRSSCKLEDLNSVQLELKETVFKKK 92
D L E EP+A + +D D LR+ K +L +++ + +L+ L+ LK+ + ++K
Sbjct: 309 DALLEGEEPEAQLPPADWQEDSIALRLDKQLLPLVRQQAHELQQLSGQLASLKDALEERK 368
Query: 93 FL-----IVLDDVWSERYDLWQALKSPFMAGAPGSRIIVTTRSM 131
+ +++ + WQAL+ MA R++ R++
Sbjct: 369 LIEKAKSVLMTYQGMQEEQAWQALRK--MAMDKNQRMVEIARAL 410
>pdb|3O2R|A Chain A, Structural Flexibility In Region Involved In Dimer
Formation Of Nuclease Domain Of Ribonuclase Iii (Rnc)
From Campylobacter Jejuni
pdb|3O2R|C Chain C, Structural Flexibility In Region Involved In Dimer
Formation Of Nuclease Domain Of Ribonuclase Iii (Rnc)
From Campylobacter Jejuni
Length = 170
Score = 30.4 bits (67), Expect = 6.1, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 253 YEFKEKELVLLWIAEGLVQQSEDNKQLEDLGSGYFHDLLSRSLFQK 298
YEFK+K L++ + ++S +N++LE LG ++ LF K
Sbjct: 37 YEFKDKNLLIHALTHKSFKKSYNNERLEFLGDAVLDLVVGEYLFHK 82
>pdb|3N3W|A Chain A, 2.2 Angstrom Resolution Crystal Structure Of Nuclease
Domain Ribonuclase Iii (Rnc) From Campylobacter Jejuni
pdb|3N3W|B Chain B, 2.2 Angstrom Resolution Crystal Structure Of Nuclease
Domain Ribonuclase Iii (Rnc) From Campylobacter Jejuni
Length = 248
Score = 30.4 bits (67), Expect = 6.1, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 253 YEFKEKELVLLWIAEGLVQQSEDNKQLEDLGSGYFHDLLSRSLFQK 298
YEFK+K L++ + ++S +N++LE LG ++ LF K
Sbjct: 37 YEFKDKNLLIHALTHKSFKKSYNNERLEFLGDAVLDLVVGEYLFHK 82
>pdb|1R4X|A Chain A, Crystal Structure Analys Of The Gamma-Copi Appendage
Domain
Length = 275
Score = 30.4 bits (67), Expect = 6.9, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 7/66 (10%)
Query: 815 GNCPTVVSLPK------ACFLPNLSEITIQDCNALASLTDGMIYNNAR-LEVLRIKRCDS 867
G C T+V+LPK AC + + T++DC+ TD Y + LE L + D
Sbjct: 105 GTCYTLVALPKEDPTAVACTFSCMMKFTVKDCDPTTGETDDEGYEDEYVLEDLEVTVADH 164
Query: 868 LTSISR 873
+ + +
Sbjct: 165 IQKVMK 170
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
0.320 0.137 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,005,611
Number of Sequences: 62578
Number of extensions: 1542876
Number of successful extensions: 3834
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 3806
Number of HSP's gapped (non-prelim): 38
length of query: 1237
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1127
effective length of database: 8,089,757
effective search space: 9117156139
effective search space used: 9117156139
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)