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= 040192
(386 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 78 LRTLFLNNNAPLRRIDSGFFQSMPRLNVLNLSGAIRL-YSFPLGISKLISLQHLDLSNTG 136
L + ++ N L I++ F ++P+L+ + + A L Y P L +LQ+L +SNTG
Sbjct: 56 LEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTG 115
Query: 137 IAELP 141
I LP
Sbjct: 116 IKHLP 120
>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 = 34.7 bits (78), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 78 LRTLFLNNNAPLRRIDSGFFQSMPRLNVLNLSGAIRL-YSFPLGISKLISLQHLDLSNTG 136
L + ++ N L I++ F ++P+L+ + + A L Y P L +LQ+L +SNTG
Sbjct: 56 LEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTG 115
Query: 137 IAELP 141
I LP
Sbjct: 116 IKHLP 120
>pdb|3G6S|A Chain A, Crystal Structure Of The
EndonucleaseEXONUCLEASEPHOSPHATASE (BVU_0621) FROM
Bacteroides Vulgatus. Northeast Structural Genomics
Consortium Target Bvr56d
Length = 267
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 10/68 (14%)
Query: 238 YKSVVQNTGQSFVFHSLKKFQISYCKELKDLTFLIFAPNLKSIEVDSCYALEEIVSDVPE 297
YK+ + TG + FH + C+++ F+ P + V SC EI ++VPE
Sbjct: 196 YKTAARVTGVDYTFHDFARIPAEDCEKID---FIFVTP---QVLVKSC----EIPAEVPE 245
Query: 298 VMMGNLNP 305
++ + NP
Sbjct: 246 ALLSDHNP 253
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 63/146 (43%), Gaps = 27/146 (18%)
Query: 55 NVRRLSLMENQIENLSEVPTCPYLRTLFLNNNAPLRRIDSGFF----------------Q 98
NVR L+L N++ ++S + L L L N L+ + +G F Q
Sbjct: 64 NVRYLALGGNKLHDISALKELTNLTYLILTGNQ-LQSLPNGVFDKLTNLKELVLVENQLQ 122
Query: 99 SMPRLNVLNLSGAIRLY-------SFPLGI-SKLISLQHLDLSNTGIAELPKEL-NALVN 149
S+P L+ LY S P G+ KL +L LDL N + LP+ + + L
Sbjct: 123 SLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQ 182
Query: 150 LTCLNLEETWRLTVIPRRLISSFSSL 175
L L+L + +L +P + +SL
Sbjct: 183 LKQLSLNDN-QLKSVPDGVFDRLTSL 207
>pdb|3TWI|D Chain D, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|E Chain E, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|F Chain F, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
Length = 179
Score = 32.0 bits (71), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 5/73 (6%)
Query: 70 SEVPTCPYLRTLFLNNNAPLRRIDSGFFQSMPRLNVLNLSGAIRLYSFPLGI-SKLISLQ 128
+ +PT + L++N + +++ G F S+ +L LNL+ +L + P+G+ KL L
Sbjct: 36 AGIPTTTQVLHLYINQ---ITKLEPGVFDSLTQLTYLNLA-VNQLTALPVGVFDKLTKLT 91
Query: 129 HLDLSNTGIAELP 141
HL L + +P
Sbjct: 92 HLALHINQLKSIP 104
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 31.6 bits (70), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 38/136 (27%), Positives = 55/136 (40%), Gaps = 20/136 (14%)
Query: 34 EHLVYAGAGLSETPDVRKWEKNVRRLSLMENQIENLS------------EVPTCPYLRTL 81
+H AGL E PD + + L+L N + L + CP L L
Sbjct: 107 QHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTEL 166
Query: 82 FLNNNAPLRRID-SGFFQSMPRLNVLNLS-GAIRLYSFPLGISKLISLQHLDLSNTGIAE 139
PL D SG Q + L L L IR S P I+ L +L+ L + N+ ++
Sbjct: 167 ----PEPLASTDASGEHQGLVNLQSLRLEWTGIR--SLPASIANLQNLKSLKIRNSPLSA 220
Query: 140 LPKELNALVNLTCLNL 155
L ++ L L L+L
Sbjct: 221 LGPAIHHLPKLEELDL 236
>pdb|1A9N|A Chain A, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|C Chain C, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 176
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 63 ENQIENLSEVPTCPYLRTLFLNNNAPLRRIDSGFFQSMPRLNVLNLS 109
+N+I L P L+TL +NNN + RI G Q++P L L L+
Sbjct: 51 DNEIRKLDGFPLLRRLKTLLVNNNR-ICRIGEGLDQALPDLTELILT 96
>pdb|4ARN|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|C Chain C, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|D Chain D, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARR|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
pdb|4ARR|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
Length = 279
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 46/82 (56%), Gaps = 9/82 (10%)
Query: 55 NVRRLSLMENQIENLSEVPTCPY-----LRTLFLNNNAPLRRIDSGFFQSMPRLNVLNLS 109
++R LS +E + N+ E+P+ + L ++ +N LR++ G F MP+L LNL+
Sbjct: 145 DMRNLSHLELR-ANIEEMPSHLFDDLENLESIEFGSNK-LRQMPRGIFGKMPKLKQLNLA 202
Query: 110 GAIRLYSFPLGI-SKLISLQHL 130
+L S P GI +L SLQ +
Sbjct: 203 SN-QLKSVPDGIFDRLTSLQKI 223
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
Query: 59 LSLMENQIENLSEVPTCPYLRTLFLNNNAPLRRIDSGFFQ---SMPRLNVLNLSG 110
L +N +EN+ V P L+ L L NN R S Q S PRL +LNL G
Sbjct: 491 LQASDNALENVDGVANLPRLQELLLCNN---RLQQSAAIQPLVSCPRLVLLNLQG 542
>pdb|1DCE|A Chain A, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
Length = 567
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
Query: 59 LSLMENQIENLSEVPTCPYLRTLFLNNNAPLRRIDSGFFQ---SMPRLNVLNLSG 110
L +N +EN+ V P L+ L L NN R S Q S PRL +LNL G
Sbjct: 491 LQASDNALENVDGVANLPRLQELLLCNN---RLQQSAAIQPLVSCPRLVLLNLQG 542
>pdb|3ZLI|A Chain A, Crystal Structure Of Jmjc Domain Of Human Histone
Demethylase Uty
pdb|3ZLI|B Chain B, Crystal Structure Of Jmjc Domain Of Human Histone
Demethylase Uty
Length = 478
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 295 VPEVMMGNLNPFAQ---FHFLCFSYLPNLKSIYRKPLP 329
VPE G LN F + +FL S+ PNL+ +Y +P
Sbjct: 240 VPEDYWGVLNDFCEKNNLNFLMSSWWPNLEDLYEANVP 277
>pdb|1FO1|A Chain A, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FO1|B Chain B, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
Length = 271
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 35/73 (47%), Gaps = 7/73 (9%)
Query: 42 GLSETPDVRKWEKNV--RRLSLMENQIENLSEVPTCPYLRTLFLNNNAPLRRID--SGFF 97
GL PD+ +V R S M + + E P L +L L+NN L R+D S
Sbjct: 130 GLRSDPDLVAQNIDVVLNRRSCMAATLRIIEE--NIPELLSLNLSNNR-LYRLDDMSSIV 186
Query: 98 QSMPRLNVLNLSG 110
Q P L +LNLSG
Sbjct: 187 QKAPNLKILNLSG 199
>pdb|2WQX|A Chain A, Inlb321_4r: S199r, D200r, G206r, A227r, C242a Mutant Of
The Listeria Monocytogenes Inlb Internalin Domain
pdb|2WQX|B Chain B, Inlb321_4r: S199r, D200r, G206r, A227r, C242a Mutant Of
The Listeria Monocytogenes Inlb Internalin Domain
Length = 289
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 45/92 (48%), Gaps = 6/92 (6%)
Query: 64 NQIENLSEVPTCPYLRTLFLNNNAPLRRIDSGFFQSMPRLNVLNLSGAIRLYSFPLGISK 123
N I +++ + P L +L+L NN + D + +L+ L+L PL ++
Sbjct: 120 NGISDINGLVHLPQLESLYLGNN---KITDITVLSRLTKLDTLSLEDNQIRRIVPL--AR 174
Query: 124 LISLQHLDLSNTGIAELPKELNALVNLTCLNL 155
L LQ+L LS I++L + L L NL L L
Sbjct: 175 LTKLQNLYLSKNHISDL-RALRGLKNLDVLEL 205
>pdb|1FT8|A Chain A, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|B Chain B, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|C Chain C, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|D Chain D, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|E Chain E, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
Length = 271
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 35/73 (47%), Gaps = 7/73 (9%)
Query: 42 GLSETPDVRKWEKNV--RRLSLMENQIENLSEVPTCPYLRTLFLNNNAPLRRID--SGFF 97
GL PD+ +V R S M + + E P L +L L+NN L R+D S
Sbjct: 130 GLRSDPDLVAQNIDVVLNRRSCMAATLRIIEE--NIPELLSLNLSNNR-LYRLDDMSSIV 186
Query: 98 QSMPRLNVLNLSG 110
Q P L +LNLSG
Sbjct: 187 QKAPNLKILNLSG 199
>pdb|3RW6|A Chain A, Structure Of Nuclear Rna Export Factor Tap Bound To Cte
Rna
pdb|3RW6|B Chain B, Structure Of Nuclear Rna Export Factor Tap Bound To Cte
Rna
pdb|3RW7|A Chain A, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|B Chain B, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|C Chain C, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|D Chain D, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
Length = 267
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 35/73 (47%), Gaps = 7/73 (9%)
Query: 42 GLSETPDVRKWEKNV--RRLSLMENQIENLSEVPTCPYLRTLFLNNNAPLRRID--SGFF 97
GL PD+ +V R S M + + E P L +L L+NN L R+D S
Sbjct: 136 GLRSDPDLVAQNIDVVLNRRSCMAATLRIIEE--NIPELLSLNLSNNR-LYRLDDMSSIV 192
Query: 98 QSMPRLNVLNLSG 110
Q P L +LNLSG
Sbjct: 193 QKAPNLKILNLSG 205
>pdb|1M9S|A Chain A, Crystal Structure Of Internalin B (Inlb), A Listeria
Monocytogenes Virulence Protein Containing Sh3-Like
Domains
Length = 605
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 44/93 (47%), Gaps = 6/93 (6%)
Query: 63 ENQIENLSEVPTCPYLRTLFLNNNAPLRRIDSGFFQSMPRLNVLNLSGAIRLYSFPLGIS 122
N I +++ + P L +L+L NN + D + +L+ L+L PL +
Sbjct: 118 HNGISDINGLVHLPQLESLYLGNN---KITDITVLSRLTKLDTLSLEDNQISDIVPL--A 172
Query: 123 KLISLQHLDLSNTGIAELPKELNALVNLTCLNL 155
L LQ+L LS I++L + L L NL L L
Sbjct: 173 GLTKLQNLYLSKNHISDL-RALAGLKNLDVLEL 204
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 36/129 (27%), Positives = 60/129 (46%), Gaps = 11/129 (8%)
Query: 124 LISLQHLDLSNTGIAELPKE-LNALVNLTCLNLEETWRLTVIPRRLISSFSSLHVLRIFG 182
L SL+HLDLS+ ++ L L +L LNL T+ L + ++L LRI G
Sbjct: 99 LGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRI-G 157
Query: 183 SGYSYSD-------GMIGNGEFE-QLCGFRRSKSLDVSALADLKRLNRLKIAECYGLAEL 234
+ ++S+ G+ E E + R +S + ++ D+ L L ++E L E+
Sbjct: 158 NVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLT-LHLSESAFLLEI 216
Query: 235 KMDYKSVVQ 243
D S V+
Sbjct: 217 FADILSSVR 225
>pdb|1KOO|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 35/73 (47%), Gaps = 7/73 (9%)
Query: 42 GLSETPDVRKWEKNV--RRLSLMENQIENLSEVPTCPYLRTLFLNNNAPLRRID--SGFF 97
GL PD+ +V R S M + + E P L +L L+NN L R+D S
Sbjct: 136 GLRSDPDLVAQNIDVVLNRRSSMAATLRIIEE--NIPELLSLNLSNNR-LYRLDDMSSIV 192
Query: 98 QSMPRLNVLNLSG 110
Q P L +LNLSG
Sbjct: 193 QKAPNLKILNLSG 205
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
0.322 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,009,539
Number of Sequences: 62578
Number of extensions: 438683
Number of successful extensions: 1089
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 59
Number of HSP's that attempted gapping in prelim test: 1010
Number of HSP's gapped (non-prelim): 152
length of query: 386
length of database: 14,973,337
effective HSP length: 101
effective length of query: 285
effective length of database: 8,652,959
effective search space: 2466093315
effective search space used: 2466093315
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: 52 (24.6 bits)