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= 048831
(1051 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 = 58.2 bits (139), Expect = 3e-08, Method: Composition-based stats.
Identities = 52/171 (30%), Positives = 73/171 (42%), Gaps = 25/171 (14%)
Query: 410 LPEGLEYLSNKLRLLNWHRYP-LKSLPSNLQ----------LDKIVEFQMCYSHIEELWK 458
LP + L N+LR L+ P L LP L L + ++ ++ I L
Sbjct: 142 LPASIASL-NRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPA 200
Query: 459 GIKPLNTLKVMKLSHSENLIKTPNFIEVPNLEVLDLKGCTSLREIHSSXXXXXXXXXXXX 518
I L LK +K+ +S P +P LE LDL+GCT+LR
Sbjct: 201 SIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP-----------IF 249
Query: 519 XGCTSLT--TLPDCKNLSSLPVTISSLKCLRTLKLSGCSKLKKFPAIVASM 567
G L L DC NL +LP+ I L L L L GC L + P+++A +
Sbjct: 250 GGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 56.2 bits (134), Expect = 1e-07, Method: Composition-based stats.
Identities = 54/178 (30%), Positives = 75/178 (42%), Gaps = 16/178 (8%)
Query: 524 LTTLPDCKN-LSSLPVTISSLKCLRTLKLSGCSKLKKFPAIVASME---------DLSEL 573
L TL +N L +LP +I+SL LR L + C +L + P +AS + +L L
Sbjct: 129 LETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSL 188
Query: 574 YLDGTYITEVPSSIXXXXXXXXXXXXDCKNLVRLPNSINGLKSLKTLNLSGCCKLENVPD 633
L+ T I +P+SI + L L +I+ L L+ L+L GC L N P
Sbjct: 189 RLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPP 247
Query: 634 TLGQVESLEEL---DISGTATRRPPSSIFLMKNLKTLSFSGCNGPPSTASCHLNLPFN 688
G L+ L D S T P I + L+ L GC S LP N
Sbjct: 248 IFGGRAPLKRLILKDCSNLLTL--PLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPAN 303
Score = 35.0 bits (79), Expect = 0.20, Method: Composition-based stats.
Identities = 55/230 (23%), Positives = 83/230 (36%), Gaps = 23/230 (10%)
Query: 557 LKKFPAIVASMEDLSELYLDGTYITEVPSSIXXXXXXXXXXXXDCKNLVR-LPNSINGLK 615
L +FP + L +D + E+P + +N +R LP SI L
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTL--ARNPLRALPASIASLN 150
Query: 616 SLKTLNLSGCCKLENVPDTLGQVESLEELDISGTATRRPPSSIFLMKNLKTLSFSGCNGP 675
L+ L++ C +L +P E L D SG + +++L+ L ++G
Sbjct: 151 RLRELSIRACPELTELP------EPLASTDASGEH-----QGLVNLQSLR-LEWTGIRSL 198
Query: 676 PSTASCHLNLPFNLMRKSSCPVAXXXXXXXXXXXXXXXXXXXXXXREGAILSDICNLHSL 735
P++ + NL +R S I L
Sbjct: 199 PASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFG---GRAPL 255
Query: 736 KELYLSG-NNFVTLPASISGLFNLKYLELEDCKRLQSLP----QLPPNVI 780
K L L +N +TLP I L L+ L+L C L LP QLP N I
Sbjct: 256 KRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCI 305
>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 = 36.6 bits (83), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 22/49 (44%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 725 ILSDICNLHSLKELYLSGNNFVTLPASISGLFNLKYLELEDCKRLQSLP 773
I ++I L LYL+GN+ LPA I L NL+ L+L RL SLP
Sbjct: 239 ISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLP 286
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 727 SDICNLHSLKELYLSGNNFVTLPASISGLFNLKYLELED 765
++I NL +L+ L LS N +LPA + F LKY D
Sbjct: 264 AEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFD 302
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 33.5 bits (75), Expect = 0.62, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 21 PKTVKELVGIESRLEKLRFLMGTGST---DVRMIGIWGMGGLGKTTLARVVYDLISHEF 76
PKT+ E +G E +KLR + + + ++G GLGKTTLA V I+HE
Sbjct: 8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHV----IAHEL 62
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 33.5 bits (75), Expect = 0.62, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 21 PKTVKELVGIESRLEKLRFLMGTGST---DVRMIGIWGMGGLGKTTLARVVYDLISHEF 76
PKT+ E +G E +KLR + + + ++G GLGKTTLA V I+HE
Sbjct: 8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHV----IAHEL 62
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 33.5 bits (75), Expect = 0.62, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 21 PKTVKELVGIESRLEKLRFLMGTGST---DVRMIGIWGMGGLGKTTLARVVYDLISHEF 76
PKT+ E +G E +KLR + + + ++G GLGKTTLA V I+HE
Sbjct: 8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHV----IAHEL 62
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
Length = 174
Score = 33.1 bits (74), Expect = 0.90, Method: Composition-based stats.
Identities = 26/105 (24%), Positives = 50/105 (47%), Gaps = 5/105 (4%)
Query: 521 CTSLTTLPDCKN--LSSLPVTISSLKCLRTLKLSGCSKLKKFPAIVASMEDLSELYLDGT 578
C+ TL +C+N L+S+P I + K L + +KL+ P + + +L +LY +
Sbjct: 10 CSCDQTLVNCQNIRLASVPAGIPTDKQRLWLNNNQITKLE--PGVFDHLVNLQQLYFNSN 67
Query: 579 YITEVPSSIXXXXXXXXXXXXDCKNLVRLP-NSINGLKSLKTLNL 622
+T +P+ + + +L +P + + LKSL + L
Sbjct: 68 KLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL 112
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 16/80 (20%)
Query: 520 GCTSLTTLPDC------------KNLSSLPVTISSLKCLRTLKLSGCSKLKKFPAIVASM 567
G + LTTLPDC NL+SLP LRTL++SG ++L P + +
Sbjct: 48 GESGLTTLPDCLPAHITTLVIPDNNLTSLPALPPE---LRTLEVSG-NQLTSLPVLPPGL 103
Query: 568 EDLSELYLDGTYITEVPSSI 587
+LS T++ +PS +
Sbjct: 104 LELSIFSNPLTHLPALPSGL 123
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 735 LKELYLSGNNFVTLPASISGLFNLKYLELEDCKRLQSLPQLPPNVIKVSV 784
LKEL +SGN +LP S L L + RL SLP LP ++ +SV
Sbjct: 223 LKELIVSGNRLTSLPVLPSELKEL----MVSGNRLTSLPMLPSGLLSLSV 268
>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp
Form)
pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp
Form)
pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
Length = 412
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 38 RFLMGTGSTDVRMI-GIWGMGGLGKTTLARVVYDLIS 73
R L G G +DV MI G G G+GKTTLA+ +S
Sbjct: 41 RLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS 77
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 27/46 (58%), Gaps = 8/46 (17%)
Query: 732 LHSLKELYLSGNNFVTLPASISGLFN----LKYLELEDCKRLQSLP 773
L SL +LYL GN +LP +G+FN L YL L +LQSLP
Sbjct: 51 LTSLTQLYLGGNKLQSLP---NGVFNKLTSLTYLNLST-NQLQSLP 92
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 31.2 bits (69), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 381 FFLKNEV-RLSAKAFSLMTNLRFLNIGNVQL---PEGLEYLSNKLRLLNWHRYPLKSLPS 436
+ N++ +L F + NL+ L +G+ QL P G+ +L +L+ L LPS
Sbjct: 46 YLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPS 105
Query: 437 NLQLDKIV---EFQMCYSHIEELWKGIKPLNTLKVMKLSHSE 475
+ D++V E MC + + EL +GI+ L L + L ++
Sbjct: 106 AV-FDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQ 146
>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 = 30.8 bits (68), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 56/134 (41%), Gaps = 12/134 (8%)
Query: 526 TLPDCKNLSSL-----------PVTISSLKCLRTLKLSGCSKLKKFPAIVASMEDLSELY 574
TL +C L SL P ++ SL LR LKL + P + ++ L L
Sbjct: 410 TLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLI 469
Query: 575 LDGTYIT-EVPSSIXXXXXXXXXXXXDCKNLVRLPNSINGLKSLKTLNLSGCCKLENVPD 633
LD +T E+PS + + + +P I L++L L LS N+P
Sbjct: 470 LDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPA 529
Query: 634 TLGQVESLEELDIS 647
LG SL LD++
Sbjct: 530 ELGDCRSLIWLDLN 543
>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 = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 56/134 (41%), Gaps = 12/134 (8%)
Query: 526 TLPDCKNLSSL-----------PVTISSLKCLRTLKLSGCSKLKKFPAIVASMEDLSELY 574
TL +C L SL P ++ SL LR LKL + P + ++ L L
Sbjct: 413 TLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLI 472
Query: 575 LDGTYIT-EVPSSIXXXXXXXXXXXXDCKNLVRLPNSINGLKSLKTLNLSGCCKLENVPD 633
LD +T E+PS + + + +P I L++L L LS N+P
Sbjct: 473 LDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPA 532
Query: 634 TLGQVESLEELDIS 647
LG SL LD++
Sbjct: 533 ELGDCRSLIWLDLN 546
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 29.6 bits (65), Expect = 8.8, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 4/82 (4%)
Query: 3 SEFIEEIVNVISSKIH-TEPKTVKELVGIESRLEKLRFLMGTGSTDVRMIG---IWGMGG 58
SEF+ V S + PK++ E +G E+ +KL + ++ + G G
Sbjct: 2 SEFLTPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPG 61
Query: 59 LGKTTLARVVYDLISHEFYASS 80
LGKTTLA ++ + + +S
Sbjct: 62 LGKTTLAHIIASELQTNIHVTS 83
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 29.6 bits (65), Expect = 8.8, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 4/82 (4%)
Query: 3 SEFIEEIVNVISSKIH-TEPKTVKELVGIESRLEKLRFLMGTGSTDVRMIG---IWGMGG 58
SEF+ V S + PK++ E +G E+ +KL + ++ + G G
Sbjct: 2 SEFLTPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPG 61
Query: 59 LGKTTLARVVYDLISHEFYASS 80
LGKTTLA ++ + + +S
Sbjct: 62 LGKTTLAHIIASELQTNIHVTS 83
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 29.6 bits (65), Expect = 8.9, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 4/82 (4%)
Query: 3 SEFIEEIVNVISSKIH-TEPKTVKELVGIESRLEKLRFLMGTGSTDVRMIG---IWGMGG 58
SEF+ V S + PK++ E +G E+ +KL + ++ + G G
Sbjct: 2 SEFLTPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPG 61
Query: 59 LGKTTLARVVYDLISHEFYASS 80
LGKTTLA ++ + + +S
Sbjct: 62 LGKTTLAHIIASELQTNIHVTS 83
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 29.6 bits (65), Expect = 9.1, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 4/82 (4%)
Query: 3 SEFIEEIVNVISSKIH-TEPKTVKELVGIESRLEKLRFLMGTGSTDVRMIG---IWGMGG 58
SEF+ V S + PK++ E +G E+ +KL + ++ + G G
Sbjct: 2 SEFLTPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPG 61
Query: 59 LGKTTLARVVYDLISHEFYASS 80
LGKTTLA ++ + + +S
Sbjct: 62 LGKTTLAHIIASELQTNIHVTS 83
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 29.6 bits (65), Expect = 9.4, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 4/82 (4%)
Query: 3 SEFIEEIVNVISSKIH-TEPKTVKELVGIESRLEKLRFLMGTGSTDVRMIG---IWGMGG 58
SEF+ V S + PK++ E +G E+ +KL + ++ + G G
Sbjct: 2 SEFLTPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPG 61
Query: 59 LGKTTLARVVYDLISHEFYASS 80
LGKTTLA ++ + + +S
Sbjct: 62 LGKTTLAHIIASELQTNIHVTS 83
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 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,171,203
Number of Sequences: 62578
Number of extensions: 1123426
Number of successful extensions: 2646
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 2600
Number of HSP's gapped (non-prelim): 62
length of query: 1051
length of database: 14,973,337
effective HSP length: 109
effective length of query: 942
effective length of database: 8,152,335
effective search space: 7679499570
effective search space used: 7679499570
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)