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= 048779
(911 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 = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 51/157 (32%), Positives = 66/157 (42%), Gaps = 24/157 (15%)
Query: 606 LEHLGIRYCPSLTCIFSKNELPATLESLEVGNLPPSLKSLCV-----YGCSKLESIAERL 660
L L IR CP LT ELP L S + L +L G L + L
Sbjct: 152 LRELSIRACPELT------ELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANL 205
Query: 661 DDNTSLKIIRIDFCEKLKILPSGLHNLRQLLEIKIWWCGNLVTFPE--GGLPCAKLTRLE 718
+ SLKI L L +H+L +L E+ + C L +P GG A L RL
Sbjct: 206 QNLKSLKI----RNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGR--APLKRLI 259
Query: 719 IYDCKRLEALPKGLHNLKSLQELRIGG-----ELPSL 750
+ DC L LP +H L L++L + G LPSL
Sbjct: 260 LKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
Score = 36.6 bits (83), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 32/104 (30%), Positives = 48/104 (46%), Gaps = 3/104 (2%)
Query: 18 LFKLQSLRVFSLRGYRISELPDSVGDLRYLRHLNLSGTEIRTLPESVNKLYNLHTLLLVG 77
L LQSLR L I LP S+ +L+ L+ L + + + L +++ L L L L G
Sbjct: 182 LVNLQSLR---LEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRG 238
Query: 78 CRRLKKLCADMGNLIKLHHLNNSNTDLLKEMPVGIGKLTCLQTL 121
C L+ G L L + L +P+ I +LT L+ L
Sbjct: 239 CTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKL 282
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 29/114 (25%), Positives = 49/114 (42%), Gaps = 10/114 (8%)
Query: 17 KLFKLQSLRVFSLRGYRISELPDSVGDLRYLRHLNLSGTEIRTLPESVNKLYNLHTLLLV 76
+ F+L L+ ++ + ELPD+ L L L+ +R LP S+ L L L +
Sbjct: 99 QAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIR 158
Query: 77 GCRRLKKLCADMGN---------LIKLHHLNNSNTDLLKEMPVGIGKLTCLQTL 121
C L +L + + L+ L L T ++ +P I L L++L
Sbjct: 159 ACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTG-IRSLPASIANLQNLKSL 211
Score = 33.1 bits (74), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 48/186 (25%), Positives = 72/186 (38%), Gaps = 31/186 (16%)
Query: 677 LKILPSGLHNLRQLLEIKIWWCGNLVTFPEGGLPCAKLTRLEIYDCKRLEALPKGLHNLK 736
L+ LP+ + +L +L E+ I C L PE P A + +GL NL+
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPE---PLASTDASGEH---------QGLVNLQ 186
Query: 737 SLQELRIGGELPSLEEDDGLPTDLRSLEIIFNTKIWKSMIER-GQGFHRFSSLRHLSIEG 795
SL+ G LP + +L+ + + KI S + G H L L + G
Sbjct: 187 SLRLEWTGIR--------SLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRG 238
Query: 796 CDDDMVSFPPEAEDKRLGTALPLPASLTSMWIGDFPNLERLSSSIVDLQNLTELRLHDCP 855
C + ++PP + A L + + D NL L I L L +L L C
Sbjct: 239 C-TALRNYPPIFGGR---------APLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCV 288
Query: 856 KLKYFP 861
L P
Sbjct: 289 NLSRLP 294
Score = 32.7 bits (73), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 1/84 (1%)
Query: 26 VFSLRGYRISELPDSVGDLRYLRHLNLSGTEIRTLPESVNKLYNLHTLLLVGCRRLKKLC 85
LR + + PD L +L+H + + LP++ + L TL L L+ L
Sbjct: 85 ALELRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALP 143
Query: 86 ADMGNLIKLHHLNNSNTDLLKEMP 109
A + +L +L L+ L E+P
Sbjct: 144 ASIASLNRLRELSIRACPELTELP 167
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 55/188 (29%), Positives = 70/188 (37%), Gaps = 55/188 (29%)
Query: 336 LQMLVIYR--CEEFSVSVTSLPALCNLQINGCEELSVSLTSLP-------------ALCN 380
L+ L + R S+ SL L L I C EL T LP L N
Sbjct: 129 LETLTLARNPLRALPASIASLNRLRELSIRACPEL----TELPEPLASTDASGEHQGLVN 184
Query: 381 LQIGRCEELSVSVTSLPA-LCNLQ--------------IGPLKPRIPKLEEL---GINNI 422
LQ R E + SLPA + NLQ +GP +PKLEEL G +
Sbjct: 185 LQSLRLEW--TGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTAL 242
Query: 423 KNETCIWKSHTELLQDICSLKRLTITSCSKLQSLVAEEEEDQRQKLCEFSCRLEYLRLYI 482
+N I+ LKRL + CS L +L + +LE L L
Sbjct: 243 RNYPPIFGGR-------APLKRLILKDCSNLLTLPLD---------IHRLTQLEKLDLRG 286
Query: 483 CEGLVKLP 490
C L +LP
Sbjct: 287 CVNLSRLP 294
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 33.5 bits (75), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 38/64 (59%), Gaps = 3/64 (4%)
Query: 13 SILPKLFKLQSLRVFSLRGYRISELPDSVGDLRYLRHLNLSGTEIRTLPESV-NKLYNLH 71
S+L +L +LQ +++ G P + L YLR LN+SG ++ TL ESV + + NL
Sbjct: 266 SMLHELLRLQEIQLVG--GQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLE 323
Query: 72 TLLL 75
TL+L
Sbjct: 324 TLIL 327
>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 = 33.1 bits (74), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 1/85 (1%)
Query: 13 SILPKLFKLQSLRVFSLRGYRISELPDSVGDLRYLRHLNLSGTEIRTLPESVNKLYNLHT 72
+I +FK L L G ++ELP + +L LR L+LS + +LP + + L
Sbjct: 238 NISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKY 297
Query: 73 LLLVGCRRLKKLCADMGNLIKLHHL 97
+ L + GNL L L
Sbjct: 298 FYFFD-NMVTTLPWEFGNLCNLQFL 321
>pdb|2JQQ|A Chain A, Solution Structure Of Saccharomyces Cerevisiae Conserved
Oligomeric Golgi Subunit 2 Protein (Cog2p)
Length = 204
Score = 33.1 bits (74), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 74 LLVGCRRLKKLCADMGNLIKLHHLNNSNTDLLKEMPVGIGKLT--CLQ 119
L+ RR+ + CAD N +HHL N DLL+E + + LT CL+
Sbjct: 139 LITASRRILESCAD-SNSPYIHHLRNDYQDLLQEFQISLKILTEKCLE 185
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 35/110 (31%), Positives = 54/110 (49%), Gaps = 6/110 (5%)
Query: 16 PKLFK-LQSLRVFSLRGYRISELPDSV-GDLRYLRHLNLSGTEIRTLPE-SVNKLYNLHT 72
P LF+ L +L+ L+ + LPD+ DL L HL L G I ++PE + L++L
Sbjct: 121 PGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDR 180
Query: 73 LLLVG---CRRLKKLCADMGNLIKLHHLNNSNTDLLKEMPVGIGKLTCLQ 119
LLL R D+G L+ L+ N+ + L E+ V + L L+
Sbjct: 181 LLLHQNHVARVHPHAFRDLGRLMTLYLFANNLSMLPAEVLVPLRSLQYLR 230
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 36/114 (31%), Positives = 55/114 (48%), Gaps = 13/114 (11%)
Query: 16 PKLFK-LQSLRVFSLRGYRISELPD-SVGDLRYLRHLNLSGTEIRTLPESVNKLYNLHTL 73
P LF+ L +L+ L+ + LPD + DL L HL L G I ++PE + LH+L
Sbjct: 121 PGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFR--GLHSL 178
Query: 74 --LLVGCRRLKKL----CADMGNLIKLHHLNNSNTDLLKEMPVGIGKLTCLQTL 121
LL+ R+ + D+G L+ L+ N+ + L E + L LQ L
Sbjct: 179 DRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTE---ALAPLRALQYL 229
>pdb|2Z84|A Chain A, Insights From Crystal And Solution Structures Of Mouse
Ufsp1
Length = 218
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 61 PESVNKLYNLHTLLLVGCRRLKKLCADMGNLIKLHHLNNSNTDLLKEMPVGIGKLTCLQT 120
P ++ L ++H L V C +L G+ + H+ D L + G G T LQT
Sbjct: 1 PSTLELLKDVHLGLPVPCHDPARLALLSGHYLYYHY----GCDGLDDRGWGCGYRT-LQT 55
Query: 121 LCNFVVGKDSG-SGLPELKLLMHLRG 145
LC++ G+ SG GLP L+ + G
Sbjct: 56 LCSWPGGQSSGVPGLPALQGALEAMG 81
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 56/103 (54%), Gaps = 4/103 (3%)
Query: 21 LQSLRVFSLRGYRISELPDSVGDLRYLRHLNLSGTEIRTLPESV-NKLYNLHTLLLVGCR 79
L ++R +L G ++ ++ ++ +L L +L L+G ++++LP V +KL NL L+LV +
Sbjct: 62 LPNVRYLALGGNKLHDI-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ 120
Query: 80 RLKKLCADMGNLIKLHHLNNSNTDLLKEMPVGI-GKLTCLQTL 121
L L +LN ++ L+ +P G+ KLT L L
Sbjct: 121 LQSLPDGVFDKLTNLTYLNLAHNQ-LQSLPKGVFDKLTNLTEL 162
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 36/114 (31%), Positives = 55/114 (48%), Gaps = 13/114 (11%)
Query: 16 PKLFK-LQSLRVFSLRGYRISELPD-SVGDLRYLRHLNLSGTEIRTLPESVNKLYNLHTL 73
P LF+ L +L+ L+ + LPD + DL L HL L G I ++PE + LH+L
Sbjct: 122 PGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFR--GLHSL 179
Query: 74 --LLVGCRRLKKLCA----DMGNLIKLHHLNNSNTDLLKEMPVGIGKLTCLQTL 121
LL+ R+ + D+G L+ L+ N+ + L E + L LQ L
Sbjct: 180 DRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTE---ALAPLRALQYL 230
>pdb|4FS7|A Chain A, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Bacova_04585) From Bacteroides Ovatus Atcc 8483
At 1.19 A Resolution
Length = 394
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 47/133 (35%), Positives = 64/133 (48%), Gaps = 25/133 (18%)
Query: 624 NELPATLESLEVGNLPPSLKSL---CVYGCSKLESIAERLDDNTSLKIIRIDFCEKLKIL 680
+E AT ESLE +LP S ++L GC KL+SI +L N LKIIR D+C IL
Sbjct: 155 DEAFATCESLEYVSLPDSXETLHNGLFSGCGKLKSI--KLPRN--LKIIR-DYCFAECIL 209
Query: 681 ------PSGLHNLRQLLEIKIWWCGNLVTFPEGGLPCAKLTRLEIYDCKRLEALPKGLHN 734
P+ L+ L K N++ P+ +L + Y C LE++ + N
Sbjct: 210 LENXEFPNSLYYLGDFALSKT-GVKNII-IPDS---FTELGKSVFYGCTDLESI--SIQN 262
Query: 735 LKSLQELRIGGEL 747
K LRIGG L
Sbjct: 263 NK----LRIGGSL 271
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 48/178 (26%), Positives = 71/178 (39%), Gaps = 38/178 (21%)
Query: 501 EIFIGGCNSLVSFPEVALPSKLKK--IEISECDALKSLPE--AWMCDTNSSLEILYIESC 556
E + CNSL PE LP LK ++ + AL LP ++ +N+ LE L
Sbjct: 94 ESLVASCNSLTELPE--LPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQN 151
Query: 557 HSLRYIAGV---------QLPPSLKTLF-----IDECGNIRTLTVEEGIHXXXXX----- 597
S I V LPPSL+ + ++E ++ L I+
Sbjct: 152 SSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLP 211
Query: 598 -------XXXXXXXLLEHLG-IRYCPSLTCIFSKNELPATLESLEVGNLPPSLKSLCV 647
+LE L ++ P LT I++ N L TL +LPPSL++L V
Sbjct: 212 DLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTL-----PDLPPSLEALNV 264
>pdb|2JQD|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of Lanp
Length = 169
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 47 LRHLNLSGTEIRTLP--ESVNKLYNLHTLLLVGCRRLKKLCADMGNLIKL 94
L+HLNLSG +I+ L E + KL NL +L L C + L A N+ KL
Sbjct: 95 LKHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNC-EVTNLNAYRENVFKL 143
>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 = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 36/105 (34%), Positives = 53/105 (50%), Gaps = 8/105 (7%)
Query: 20 KLQSLRVFSLRGYRISELPDSV-GDLRYLRHLNLSGTEIRTLPESV-NKLYNLHTLLLVG 77
+L SL L G ++ LP+ V L L +LNLS ++++LP V +KL L L L
Sbjct: 50 ELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELAL-N 108
Query: 78 CRRLKKLCADMGNLIKLHHLNNSN--TDLLKEMPVGI-GKLTCLQ 119
+L+ L G KL L + + LK +P G+ +LT LQ
Sbjct: 109 TNQLQSL--PDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQ 151
>pdb|3RF9|A Chain A, X-Ray Structure Of Rlmn From Escherichia Coli
pdb|3RF9|B Chain B, X-Ray Structure Of Rlmn From Escherichia Coli
Length = 404
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 10/73 (13%)
Query: 50 LNLSGTEIRTLPESVNKLYNLHTLLLVGCRRLKKLCADMGNL----IKLHHLNNSN---- 101
L+ EIR +NK YN+ T L R L+K A+ G + + L H+N+
Sbjct: 234 LHAPNDEIRDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTIEYVMLDHVNDGTEHAH 293
Query: 102 --TDLLKEMPVGI 112
+LLK+ P I
Sbjct: 294 QLAELLKDTPCKI 306
>pdb|3RFA|A Chain A, X-Ray Structure Of Rlmn From Escherichia Coli In Complex
With S- Adenosylmethionine
pdb|3RFA|B Chain B, X-Ray Structure Of Rlmn From Escherichia Coli In Complex
With S- Adenosylmethionine
Length = 404
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 10/73 (13%)
Query: 50 LNLSGTEIRTLPESVNKLYNLHTLLLVGCRRLKKLCADMGNL----IKLHHLNNSN---- 101
L+ EIR +NK YN+ T L R L+K A+ G + + L H+N+
Sbjct: 234 LHAPNDEIRDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTIEYVMLDHVNDGTEHAH 293
Query: 102 --TDLLKEMPVGI 112
+LLK+ P I
Sbjct: 294 QLAELLKDTPCKI 306
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 33/107 (30%), Positives = 59/107 (55%), Gaps = 12/107 (11%)
Query: 21 LQSLRVFSLRGYRISELPDSVGDLRYLRHLNLSGTEIRTLPESV-NKLYNLHTLLLVGCR 79
L ++R +L G ++ ++ ++ +L L +L L+G ++++LP V +KL NL L+LV
Sbjct: 62 LPNVRYLALGGNKLHDI-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE-N 119
Query: 80 RLKKL----CADMGNLIKLHHLNNSNTDLLKEMPVGI-GKLTCLQTL 121
+L+ L + NL L+ +N L+ +P G+ KLT L L
Sbjct: 120 QLQSLPDGVFDKLTNLTYLYLYHNQ----LQSLPKGVFDKLTNLTRL 162
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 52/98 (53%), Gaps = 8/98 (8%)
Query: 29 LRGYRISELPDSVGD-LRYLRHLNLSGTEIRTLPESV-NKLYNLHTLLLVGCRRLKKLCA 86
L ++ LP V D L L L+LS +I++LP+ V +KL L T+L + +L+ L
Sbjct: 35 LESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKL-TILYLHENKLQSL-- 91
Query: 87 DMGNLIKLHHLNN--SNTDLLKEMPVGI-GKLTCLQTL 121
G KL L +T+ LK +P GI +LT LQ +
Sbjct: 92 PNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKI 129
>pdb|3MTN|A Chain A, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
pdb|3MTN|C Chain C, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
Length = 373
Score = 30.4 bits (67), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 308 VERFPKLRELHILRCSKLRGTFPKCLPA----LQMLVI--YRCEEFSVSVTSLPALCNLQ 361
V+RFP++ LH+ R S RG+ K LQ L + + ++ V L ALCN
Sbjct: 263 VQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVYQLYALCN-- 320
Query: 362 INGCEELSVSLTSLPALCNLQIG 384
SV ALC Q G
Sbjct: 321 ----HSGSVHYGHYTALCRCQTG 339
>pdb|2Y5B|A Chain A, Structure Of Usp21 In Complex With Linear
Diubiquitin-Aldehyde
pdb|2Y5B|E Chain E, Structure Of Usp21 In Complex With Linear
Diubiquitin-Aldehyde
Length = 370
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 308 VERFPKLRELHILRCSKLRGTFPKCLPA----LQMLVI--YRCEEFSVSVTSLPALCNLQ 361
V+RFP++ LH+ R S RG+ K LQ L + + ++ V L ALCN
Sbjct: 257 VQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVYQLYALCN-- 314
Query: 362 INGCEELSVSLTSLPALCNLQIG 384
SV ALC Q G
Sbjct: 315 ----HSGSVHYGHYTALCRCQTG 333
>pdb|2PCS|A Chain A, Crystal Structure Of Conserved Protein From Geobacillus
Kaustophilus
Length = 162
Score = 30.0 bits (66), Expect = 5.5, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 625 ELPATLESLEVGNLPPSLKSLCVYGCSKLESIAE 658
EL T+E + + PS+ S C+ GC LE I E
Sbjct: 10 ELKGTVEEVWSKLMDPSILSKCIMGCKSLELIGE 43
>pdb|3I3T|A Chain A, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|C Chain C, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|E Chain E, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|G Chain G, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
Length = 355
Score = 30.0 bits (66), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 308 VERFPKLRELHILRCSKLRGTFPKCLPA----LQMLVI--YRCEEFSVSVTSLPALCNLQ 361
V+RFP++ LH+ R S RG+ K LQ L + + ++ V L ALCN
Sbjct: 244 VQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVYQLYALCN-- 301
Query: 362 INGCEELSVSLTSLPALCNLQIG 384
SV ALC Q G
Sbjct: 302 ----HSGSVHYGHYTALCRCQTG 320
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 29.6 bits (65), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 14 ILPKLFK-LQSLRVFSLRGYRISEL-PDSVGDLRYLRHLNLSGTEIRTLPESV 64
I P F + LR L +ISEL PD+ LR L L L G +I LP+S+
Sbjct: 47 IPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSL 99
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 22 QSLRVFSLRGYRISEL-PDSVGDLRYLRHLNLSGTEIRTLPESV 64
+ LR L +ISEL PD+ LR L L L G +I LP+S+
Sbjct: 56 KKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSL 99
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 0.139 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,064,501
Number of Sequences: 62578
Number of extensions: 1134567
Number of successful extensions: 2628
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 2593
Number of HSP's gapped (non-prelim): 76
length of query: 911
length of database: 14,973,337
effective HSP length: 108
effective length of query: 803
effective length of database: 8,214,913
effective search space: 6596575139
effective search space used: 6596575139
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: 56 (26.2 bits)