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= 005813
(676 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 = 35.8 bits (81), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 51/96 (53%), Gaps = 11/96 (11%)
Query: 416 LPATLESLEVGNLPPSLKSIRVGGCSKLESIAERLDNNTSLETISIDSCKNLVSFPE--G 473
LPA++ +L+ +LKS+++ S L ++ + + LE + + C L ++P G
Sbjct: 198 LPASIANLQ------NLKSLKIRN-SPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFG 250
Query: 474 GLPCAKLRTLAISNCKRLEALPKGLHNLTSLQQLTI 509
G A L+ L + +C L LP +H LT L++L +
Sbjct: 251 G--RAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDL 284
Score = 35.8 bits (81), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 65/269 (24%), Positives = 116/269 (43%), Gaps = 39/269 (14%)
Query: 212 NNMKNETHI---WKSHNELLQDICSLKRLTIRRCPKIQSLVAEEEKDQQQQLCELSCRLE 268
NN + ET K+ +LL+D R+ + +++S+ + DQ + RL
Sbjct: 56 NNPQIETRTGRALKATADLLEDATQPGRVAL----ELRSVPLPQFPDQ-------AFRLS 104
Query: 269 YLRLS--ECKGLVKLPQXXXXXXXXREIEICSCHSLVSFP-EVALPSKLRKIEIRYCDAL 325
+L+ + GL +LP + + + L + P +A ++LR++ IR C L
Sbjct: 105 HLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASIASLNRLRELSIRACPEL 163
Query: 326 KSLPEAWMCDTNSSLEILHIYGCRSLT--YIAAVQVPSSLKLLTIWHCDNIRTLTVEEGI 383
LPE + T++S E + +SL + +P+S I + N+++L +
Sbjct: 164 TELPEP-LASTDASGEHQGLVNLQSLRLEWTGIRSLPAS-----IANLQNLKSLKIRNSP 217
Query: 384 QCSSGRR-YTSSFLEELHIYCCDSLTCIFSKNELPATLESLEVGNLPPSLKSIRVGGCSK 442
+ G + LEEL + C +L +N P + G P LK + + CS
Sbjct: 218 LSALGPAIHHLPKLEELDLRGCTAL-----RNYPP-----IFGGRAP--LKRLILKDCSN 265
Query: 443 LESIAERLDNNTSLETISIDSCKNLVSFP 471
L ++ + T LE + + C NL P
Sbjct: 266 LLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
Score = 28.9 bits (63), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 32/123 (26%), Positives = 48/123 (39%), Gaps = 10/123 (8%)
Query: 30 FSNLATLNFEDCSVCTTLPSVGQLHSLKHLAVRGMSRVKSLGSEFYGNDSPIPFPCLETL 89
F+ L TL + S+ L+ L+ L++R + L D+ E
Sbjct: 126 FAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDA-----SGEHQ 180
Query: 90 RFENMQEWE-DWIPLRT-GQGVEWFPKLRELHIIRCSKLQGTFP--EHLPALEMLAIEGC 145
N+Q +W +R+ + L+ L I R S L P HLP LE L + GC
Sbjct: 181 GLVNLQSLRLEWTGIRSLPASIANLQNLKSLKI-RNSPLSALGPAIHHLPKLEELDLRGC 239
Query: 146 EEL 148
L
Sbjct: 240 TAL 242
>pdb|4GT6|A Chain A, Crystal Structure Of A Leucine Rich Cell Surface Protein
(Faepraa2165_01021) From Faecalibacterium Prausnitzii
A2-165 At 1.80 A Resolution
Length = 394
Score = 32.3 bits (72), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 85/203 (41%), Gaps = 27/203 (13%)
Query: 311 PSKLRKI---EIRYCDALKSLPEAWMCDTNSSLEILHIYGCRSLTYIAAVQVPSSLKLLT 367
PS ++KI +C L +P + D+ + ++ + C L + + +S+
Sbjct: 99 PSCVKKIGRQAFXFCSELTDIP---ILDSVTEIDSEAFHHCEELDTVTIPEGVTSVADGX 155
Query: 368 IWHCDNIRTLTVEEGIQCSSGRRYTSSFLEELHIYC------------CDSLTCIFSKNE 415
+C ++ T+T+ + + R +T + L ++HI C +L+ I S +E
Sbjct: 156 FSYCYSLHTVTLPDSVTAIEERAFTGTALTQIHIPAKVTRIGTNAFSECFALSTITSDSE 215
Query: 416 -LPATLESLEVGNLPPSLKSIRVGGCSKLESIAERLDNNTS-LETISIDSCKNLVSF--P 471
PA L + IR S+ E A ++ N + +ET + DSC L S P
Sbjct: 216 SYPAIDNVLYEKSANGDYALIRYP--SQREDPAFKIPNGVARIETHAFDSCAYLASVKXP 273
Query: 472 EGGLPCAKLRTLAISNCKRLEAL 494
+ + T A NC L+ +
Sbjct: 274 DS---VVSIGTGAFXNCPALQDI 293
>pdb|1IA9|A Chain A, Crystal Structure Of The Atypical Protein Kinase Domain Of
A Trp Ca-Channel, Chak (Amppnp Complex)
pdb|1IA9|B Chain B, Crystal Structure Of The Atypical Protein Kinase Domain Of
A Trp Ca-Channel, Chak (Amppnp Complex)
pdb|1IAH|A Chain A, Crystal Structure Of The Atypical Protein Kinase Domain Of
A Trp Ca-Channel, Chak (Adp-Mg Complex)
pdb|1IAH|B Chain B, Crystal Structure Of The Atypical Protein Kinase Domain Of
A Trp Ca-Channel, Chak (Adp-Mg Complex)
pdb|1IAJ|A Chain A, Crystal Structure Of The Atypical Protein Kinase Domain Of
A Trp Ca-Channel, Chak (Apo)
pdb|1IAJ|B Chain B, Crystal Structure Of The Atypical Protein Kinase Domain Of
A Trp Ca-Channel, Chak (Apo)
Length = 280
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 37/78 (47%)
Query: 599 LERLSSSIVDLQNLTELYLADCPKLKYFPEKGLPSSLLRLYIVGCPLIEEKCRKDGGQYW 658
LE S SI++ + L C K+++ ++ + L R V C E K G Y
Sbjct: 37 LEESSPSILNNSMSSWSQLGLCAKIEFLSKEEMGGGLRRAVKVLCTWSEHDILKSGHLYI 96
Query: 659 LETHIPVVLIDWKSVFGD 676
+++ +P V+ W S++ +
Sbjct: 97 IKSFLPEVINTWSSIYKE 114
>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 = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 34/113 (30%), Positives = 56/113 (49%), Gaps = 10/113 (8%)
Query: 465 KNLVSFPEGGL--PCAKLRTLAISNCKRLEALPKGLHN-LTSLQQLTIGIGGALPSLEEE 521
+N+VS E G LRTL + + RL+ +P G+ L++L +L I + L+
Sbjct: 65 ENIVSAVEPGAFNNLFNLRTLGLRS-NRLKLIPLGVFTGLSNLTKLDISENKIVILLDYM 123
Query: 522 DDLPTNLQSLNIWGNMEIWKSMIERGRGFHRFSSLRRLTISRCDDDMVSFPLE 574
NL+SL + N ++ S R F +SL +LT+ +C ++ S P E
Sbjct: 124 FQDLYNLKSLEVGDNDLVYISH----RAFSGLNSLEQLTLEKC--NLTSIPTE 170
>pdb|1JV5|B Chain B, Anti-Blood Group A Fv
Length = 117
Score = 30.4 bits (67), Expect = 3.4, Method: Composition-based stats.
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 97 WEDWIPLRTGQGVEW 111
W +W+ LR GQG+EW
Sbjct: 33 WINWVKLRPGQGLEW 47
>pdb|3OZ9|H Chain H, Crystal Structure Of Anti-Gp41 Fab Nc-1
Length = 219
Score = 30.4 bits (67), Expect = 3.8, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 66 RVKSLGSEFYGNDSPIPFPCLET-LRFENMQEWEDWIPLRTGQGVEWFPKL 115
+++ G+E S + C T RF + W +W+ R G G+EW K+
Sbjct: 3 QLQQSGTELMKPGSSVKISCKATGYRFSSY--WVEWVKQRPGHGLEWIGKI 51
>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 = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 67/254 (26%), Positives = 111/254 (43%), Gaps = 36/254 (14%)
Query: 296 ICSCHSLVSFPEVALPSKLRKIEIRYCDALKSLPEAWMCDTNSSLEILHIYGCRSLTYIA 355
+ SC+SL PE LP L+ + + + LK+L D LE L + + L +
Sbjct: 97 VASCNSLTELPE--LPQSLKSLLVD-NNNLKAL-----SDLPPLLEYLGVSNNQ-LEKLP 147
Query: 356 AVQVPSSLKLLTIWHCDNIRTLTVEEGIQCSSGRRYTSSFLEEL-HIYCCDSLTCIFSKN 414
+Q S LK++ + + + + ++ + ++ LEEL + LT I++ N
Sbjct: 148 ELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAA---GNNQLEELPELQNLPFLTAIYADN 204
Query: 415 ELPATLESLEVGNLPPSLKSIRVGGCSKLESIAERLDNNTSLETISIDS--CKNLVSFPE 472
+L+ L +LP SL+SI V G + LE + E L N L TI D+ K L P
Sbjct: 205 N---SLKKL--PDLPLSLESI-VAGNNILEELPE-LQNLPFLTTIYADNNLLKTLPDLP- 256
Query: 473 GGLPCAKLRTLAISNCKRLEALPKGLHNLTSLQQLTIGIGGALPSLEEED---------- 522
P + + + L LP+ L L + + G+ P+L +
Sbjct: 257 ---PSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLC 313
Query: 523 DLPTNLQSLNIWGN 536
DLP +L+ LN+ N
Sbjct: 314 DLPPSLEELNVSNN 327
>pdb|2V7H|B Chain B, Crystal Structure Of An Immunogen Specific Anti-
Mannopyranoside Monoclonal Antibody Fab Fragment
pdb|2V7H|H Chain H, Crystal Structure Of An Immunogen Specific Anti-
Mannopyranoside Monoclonal Antibody Fab Fragment
Length = 220
Score = 29.6 bits (65), Expect = 5.4, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 65 SRVKSLGSEFYGNDSPIPFPCLET-LRFENMQEWEDWIPLRTGQGVEW 111
++++ G+E + + C T F N W DWI R G G+EW
Sbjct: 2 AQLQQSGAELMKPGASVKISCKATGYTFSNY--WIDWIKQRPGHGLEW 47
>pdb|1VHB|A Chain A, Bacterial Dimeric Hemoglobin From Vitreoscilla Stercoraria
pdb|1VHB|B Chain B, Bacterial Dimeric Hemoglobin From Vitreoscilla Stercoraria
pdb|2VHB|A Chain A, Azide Adduct Of The Bacterial Hemoglobin From Vitreoscilla
Stercoraria
pdb|2VHB|B Chain B, Azide Adduct Of The Bacterial Hemoglobin From Vitreoscilla
Stercoraria
pdb|3VHB|A Chain A, Imidazole Adduct Of The Bacterial Hemoglobin From
Vitreoscilla Sp.
pdb|3VHB|B Chain B, Imidazole Adduct Of The Bacterial Hemoglobin From
Vitreoscilla Sp.
pdb|4VHB|A Chain A, Thiocyanate Adduct Of The Bacterial Hemoglobin From
Vitreoscilla Sp.
pdb|4VHB|B Chain B, Thiocyanate Adduct Of The Bacterial Hemoglobin From
Vitreoscilla Sp
Length = 146
Score = 29.3 bits (64), Expect = 7.7, Method: Composition-based stats.
Identities = 17/66 (25%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 113 PKLRELHIIRCSKLQGTFPEHLPALEMLAIEGCEELLVSVASLPALCKFEIGGCKKVVWR 172
PK + ++ ++ P LPA++ +A++ C+ V+ A P + + +G K+V+
Sbjct: 54 PKALAMTVLAAAQNIENLPAILPAVKKIAVKHCQA-GVAAAHYPIVGQELLGAIKEVLGD 112
Query: 173 SATDHL 178
+ATD +
Sbjct: 113 AATDDI 118
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 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,564,583
Number of Sequences: 62578
Number of extensions: 787513
Number of successful extensions: 1938
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1926
Number of HSP's gapped (non-prelim): 19
length of query: 676
length of database: 14,973,337
effective HSP length: 105
effective length of query: 571
effective length of database: 8,402,647
effective search space: 4797911437
effective search space used: 4797911437
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: 55 (25.8 bits)