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= psy269
(345 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YUE|A Chain A, Solution Structure Of The Neuz (Nhr) Domain In Neuralized
From Drosophila Melanogaster
Length = 168
Score = 228 bits (580), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 95/159 (59%), Positives = 127/159 (79%)
Query: 34 PLYFHQVHGENVRVSRDGTVAKRYESFCKGVAFSSRPVKINEKVYVKLLEISTNWSGVIR 93
PL FH VHG+N+R+SRDGT+A+R+ESFC+ + FS+RPV+INE++ VK EIS NW+G IR
Sbjct: 8 PLQFHSVHGDNIRISRDGTLARRFESFCRAITFSARPVRINERICVKFAEISNNWNGGIR 67
Query: 94 FGFTANDPAHLKYALPRYVCPDLTNKPGYWAKALAERFADQETVLFYYVTAAGDVHFGIN 153
FGFT+NDP L+ LP+Y CPDLTN+PG+WAKAL E++ +++ +L+YYV AGDV +GIN
Sbjct: 68 FGFTSNDPVTLEGTLPKYACPDLTNRPGFWAKALHEQYCEKDNILYYYVNGAGDVIYGIN 127
Query: 154 GEEKGVFFTGVETRGPLWAMFDIYGNSTAIQLIDSRAQL 192
EEKGV TG++TR LW + DIYGN T I+ +DSR +
Sbjct: 128 NEEKGVILTGIDTRSLLWTVIDIYGNCTGIEFLDSRIYM 166
Score = 57.8 bits (138), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 261 PLPFHRTIGRNVRLSNDRTIASRRDTEFSQGYVFTGRPVQLGEKIVIQVLETESRYYGAL 320
PL FH G N+R+S D T+A RR F + F+ RPV++ E+I ++ E + + G +
Sbjct: 8 PLQFHSVHGDNIRISRDGTLA-RRFESFCRAITFSARPVRINERICVKFAEISNNWNGGI 66
Query: 321 ALGLTSCNPASLKPSV 336
G TS +P +L+ ++
Sbjct: 67 RFGFTSNDPVTLEGTL 82
>pdb|2E63|A Chain A, Solution Structure Of The Neuz Domain In Kiaa1787 Protein
Length = 170
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 47/171 (27%), Positives = 70/171 (40%), Gaps = 30/171 (17%)
Query: 37 FHQVHGENVRVSRDGTVAKRYE---SFCKGVAFSSRPVKINEKVYVKLLEISTNWSGVIR 93
H G V +S G A+R + F G+ S P++ V++ +WSG I
Sbjct: 9 LHPRTGRLVSLSACGRTARRQQPGQEFNHGLVLSREPLRDGRVFTVRIDRKVNSWSGSIE 68
Query: 94 FGFTANDPAHLKYALPRYVCPDLTN--KPGYWAKALAERFADQETVLFYYV--------- 142
G TA DP+ L + P K G W + D +VL Y
Sbjct: 69 IGVTALDPSVLDF-------PSSATGLKGGSWVVSGCSVLRDGRSVLEEYGQDLDQLGEG 121
Query: 143 -------TAAGDVHFGINGEEKGVFFTGVETRGPLWAMFDIYGNSTAIQLI 186
T AG++ +NG + GV TG+ R +WA+ D+YG T I ++
Sbjct: 122 DRVGVERTVAGELRLWVNGRDCGVAATGLPPR--VWAVVDLYGKCTQITVL 170
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 36/71 (50%), Gaps = 2/71 (2%)
Query: 264 FHRTIGRNVRLSNDRTIASRRD--TEFSQGYVFTGRPVQLGEKIVIQVLETESRYYGALA 321
H GR V LS A R+ EF+ G V + P++ G +++ + + G++
Sbjct: 9 LHPRTGRLVSLSACGRTARRQQPGQEFNHGLVLSREPLRDGRVFTVRIDRKVNSWSGSIE 68
Query: 322 LGLTSCNPASL 332
+G+T+ +P+ L
Sbjct: 69 IGVTALDPSVL 79
>pdb|3F2Z|A Chain A, Crystal Structure Of The C-Terminal Domain Of A Chitobiase
(Bf3579) From Bacteroides Fragilis, Northeast Structural
Genomics Consortium Target Bfr260b
Length = 159
Score = 31.2 bits (69), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 9/55 (16%)
Query: 67 SSRPVKINEKVYVKLLEISTNWSGVIRFGFTANDPA---HLKYALPRY---VCPD 115
S+ P+K+ V + E TNW + +FGFT D A ++K + RY V PD
Sbjct: 79 SNNPIKV---VRFEASEDGTNWESIGQFGFTNQDAALKYYVKSSTARYIKLVIPD 130
>pdb|3KW3|A Chain A, Crystal Structure Of Alanine Racemase From Bartonella
Henselae With Covalently Bound Pyridoxal Phosphate
pdb|3KW3|B Chain B, Crystal Structure Of Alanine Racemase From Bartonella
Henselae With Covalently Bound Pyridoxal Phosphate
Length = 376
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 180 STAIQLIDSRAQLNNARRVSTHLSPEELSSPINNNS 215
+TAI ID RA + N R ++ H++P E S+ + N+
Sbjct: 19 ATAIATIDVRAIVANYRTLAQHVAPTECSAVVXANA 54
>pdb|3SU8|X Chain X, Crystal Structure Of A Truncated Intracellular Domain Of
Plexin-B1 In Complex With Rac1
Length = 611
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 37/89 (41%), Gaps = 10/89 (11%)
Query: 3 PLNFPSTNRPRFFSCVTAPRTGSNSGTNNLPPLYFHQVHGENVRVSRDGTVAKRYESFCK 62
P + P RPR S R G +P +Y ++ +S GT+ K + +
Sbjct: 365 PSDEPEPPRPRRGSL----RGGERERAKAIPEIYLTRL------LSMKGTLQKFVDDLFQ 414
Query: 63 GVAFSSRPVKINEKVYVKLLEISTNWSGV 91
+ +SRPV + K + LL+ G+
Sbjct: 415 VILSTSRPVPLAVKYFFDLLDEQAQQHGI 443
>pdb|1JK9|B Chain B, Heterodimer Between H48f-Ysod1 And Yccs
pdb|1JK9|D Chain D, Heterodimer Between H48f-Ysod1 And Yccs
Length = 249
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 142 VTAAGDVHFGINGEEKGVFFTGVETRGPLWAMFD 175
V AG+ H I+ EKG GVE+ G +W FD
Sbjct: 123 VPEAGNYHASIH--EKGDVSKGVESTGKVWHKFD 154
>pdb|3SUA|D Chain D, Crystal Structure Of The Intracellular Domain Of Plexin-B1
In Complex With Rac1
pdb|3SUA|E Chain E, Crystal Structure Of The Intracellular Domain Of Plexin-B1
In Complex With Rac1
pdb|3SUA|F Chain F, Crystal Structure Of The Intracellular Domain Of Plexin-B1
In Complex With Rac1
Length = 633
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 37/89 (41%), Gaps = 10/89 (11%)
Query: 3 PLNFPSTNRPRFFSCVTAPRTGSNSGTNNLPPLYFHQVHGENVRVSRDGTVAKRYESFCK 62
P + P RPR S R G +P +Y ++ +S GT+ K + +
Sbjct: 387 PSDEPEPPRPRRGSL----RGGERERAKAIPEIYLTRL------LSMKGTLQKFVDDLFQ 436
Query: 63 GVAFSSRPVKINEKVYVKLLEISTNWSGV 91
+ +SRPV + K + LL+ G+
Sbjct: 437 VILSTSRPVPLAVKYFFDLLDEQAQQHGI 465
>pdb|3HM6|X Chain X, Crystal Structure Of The Cytoplasmic Domain Of Human
Plexin B1
Length = 644
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 37/89 (41%), Gaps = 10/89 (11%)
Query: 3 PLNFPSTNRPRFFSCVTAPRTGSNSGTNNLPPLYFHQVHGENVRVSRDGTVAKRYESFCK 62
P + P RPR S R G +P +Y ++ +S GT+ K + +
Sbjct: 398 PSDEPEPPRPRRGSL----RGGERERAKAIPEIYLTRL------LSMKGTLQKFVDDLFQ 447
Query: 63 GVAFSSRPVKINEKVYVKLLEISTNWSGV 91
+ +SRPV + K + LL+ G+
Sbjct: 448 VILSTSRPVPLAVKYFFDLLDEQAQQHGI 476
>pdb|1QUP|A Chain A, Crystal Structure Of The Copper Chaperone For Superoxide
Dismutase
pdb|1QUP|B Chain B, Crystal Structure Of The Copper Chaperone For Superoxide
Dismutase
Length = 222
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 142 VTAAGDVHFGINGEEKGVFFTGVETRGPLWAMFD 175
V AG+ H I+ EKG GVE+ G +W FD
Sbjct: 122 VPEAGNYHASIH--EKGDVSKGVESTGKVWHKFD 153
>pdb|1EJ8|A Chain A, Crystal Structure Of Domain 2 Of The Yeast Copper
Chaperone For Superoxide Dismutase (Lys7) At 1.55 A
Resolution
Length = 140
Score = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 142 VTAAGDVHFGINGEEKGVFFTGVETRGPLWAMFD 175
V AG+ H I+ EKG GVE+ G +W FD
Sbjct: 46 VPEAGNYHASIH--EKGDVSKGVESTGKVWHKFD 77
>pdb|2KD7|A Chain A, Solution Nmr Structure Of F58 TYPE C-Terminal Domain Of A
Putative Chitobiase From Bacteroides Thetaiotaomicron.
Northeast Structural Genomics Consortium Target Btr324b
Length = 159
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 67 SSRPVKINEKVYVKLLEISTNWSGVIRFGFTANDPA---HLKYALPRYV 112
S+ P+K+ V E + NW+ + RFGFT D A ++K RY+
Sbjct: 79 SNNPIKV---VEFAASEDNVNWTPIGRFGFTNQDAALEYYVKSIKARYI 124
>pdb|3GGL|A Chain A, X-Ray Structure Of The C-Terminal Domain (277-440) Of
Putative Chitobiase From Bacteroides Thetaiotaomicron.
Northeast Structural Genomics Consortium Target Btr324a
Length = 169
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 67 SSRPVKINEKVYVKLLEISTNWSGVIRFGFTANDPA---HLKYALPRYV 112
S+ P+K+ V E + NW+ + RFGFT D A ++K RY+
Sbjct: 89 SNNPIKV---VEFAASEDNVNWTPIGRFGFTNQDAALEYYVKSIKARYI 134
>pdb|2J6R|A Chain A, Faeg From F4ac Etec Strain Gis26, Produced In Tobacco
Plant Chloroplast
Length = 266
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 15/101 (14%)
Query: 10 NRP----RFFSCVTAPRTGSNSGTNNLPPLYFHQVHGENVRV-SRDGTVAKRYESFCKGV 64
N+P R P TG G + +P + F G +V + + DG E+ KG+
Sbjct: 61 NKPILLGRTKEAFATPVTG---GVDGIPHIAFTDYEGASVVLRNNDG------ETNKKGL 111
Query: 65 AFSSRPVKINEKVYVKLLEISTNWSGVI-RFGFTANDPAHL 104
A+ P+K E V ++++ +++GV+ R G T+ D L
Sbjct: 112 AYFVLPMKNAEGTKVGSVKVNASYAGVLGRGGVTSADGELL 152
>pdb|1CC1|L Chain L, Crystal Structure Of A Reduced, Active Form Of The
Ni-Fe-Se Hydrogenase From Desulfomicrobium Baculatum
Length = 498
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 31/83 (37%), Gaps = 17/83 (20%)
Query: 77 VYVKLLEISTNWSGVIRFGFTANDPAHLKYALPRYVCPDLTNKPGYWAKALAERFADQET 136
VY L E W VI FG D + + L KPG + E F D +
Sbjct: 234 VYTDLFETGIGWKNVIAFGVFPEDDDYKTFLL----------KPGVYIDGKDEEF-DSKL 282
Query: 137 VL------FYYVTAAGDVHFGIN 153
V F+ +A G +H+ +
Sbjct: 283 VKEYVGHSFFDHSAPGGLHYSVG 305
>pdb|1AVB|A Chain A, Arcelin-1 From Phaseolus Vulgaris L
pdb|1AVB|B Chain B, Arcelin-1 From Phaseolus Vulgaris L
Length = 226
Score = 27.7 bits (60), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%)
Query: 52 TVAKRYESFCKGVAFSSRPVKINEKVYVKLLEISTNWSGVIRFGFTANDPAHLKYAL 108
T K E G AF S P++IN++ L STN++ I N L +AL
Sbjct: 33 TNVKGNEEDSMGRAFYSAPIQINDRTIDNLASFSTNFTFRINAKNIENSAYGLAFAL 89
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
0.319 0.134 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,409,955
Number of Sequences: 62578
Number of extensions: 429540
Number of successful extensions: 840
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 831
Number of HSP's gapped (non-prelim): 20
length of query: 345
length of database: 14,973,337
effective HSP length: 100
effective length of query: 245
effective length of database: 8,715,537
effective search space: 2135306565
effective search space used: 2135306565
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)