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= 016160
(394 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3J1Z|P Chain P, Inward-facing Conformation Of The Zinc Transporter Yiip
Revealed By Cryo-electron Microscopy
pdb|3J1Z|Q Chain Q, Inward-facing Conformation Of The Zinc Transporter Yiip
Revealed By Cryo-electron Microscopy
Length = 306
Score = 34.7 bits (78), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 53/277 (19%), Positives = 109/277 (39%), Gaps = 2/277 (0%)
Query: 104 LAIRISNVANMVLFAAKVYASVKSGSLAIIASTXXXXXXXXXGFILWFTAFSMQTPNPYQ 163
LA R S + L K+ A + SGS +++AS I + P +
Sbjct: 13 LASRASVATALTLITIKLLAWLYSGSASMLASLTDSFADTLASIINFIAIRYAIVPADHD 72
Query: 164 YPIGKKRMQPLGILVFASVMATLGLQIILESLRTLVSNEDQFNLTKEQEQWVVGIMXXXX 223
+ G + +PL L ++ + ++ L++ N T VV I+
Sbjct: 73 HRYGHGKAEPLAALAQSAFIMGSAFLLLFYGGERLLNPSPVENATLGVVVSVVAIVLTLA 132
Query: 224 XXXXXXXXYCRAFTNEIVKAYAQDHFFDVITNIIGLVAVLLANYIDDWMDPVGAIILALY 283
A + +V+A + + D+ N L+A++L+ Y W D + A+++A Y
Sbjct: 133 LVLLQKRALA-ATNSTVVEADSLHYKSDLFLNAAVLLALVLSQYGWWWADGLFAVLIACY 191
Query: 284 TIRTWSMTVLENVNSLVGRSAAPEYLQKLTYLCWNHHKSIRHIDTVRAYTFGSHYFVEVD 343
+ ++ +L+ R + Q++ + + + +R G F++
Sbjct: 192 IGQQAFDLGYRSIQALLDRELDEDTRQRIKLIA-KEDPRVLGLHDLRTRQAGKTVFIQFH 250
Query: 344 IVLPASMPLQEAHDIGESLQEKLELLPEIERAFVHLD 380
+ L ++ L EAH I ++ +++ E +H D
Sbjct: 251 LELDGNLSLNEAHSITDTTGLRVKAAFEDAEVIIHQD 287
>pdb|3I4R|B Chain B, Nup107(Aa658-925)NUP133(AA517-1156) Complex, H.Sapiens
Length = 644
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 6/77 (7%)
Query: 308 YLQKLTYLCWNHHKSIRHIDTVRAYTFG-----SHYFVEVDIVLPASMPLQEAHDIGES- 361
+LQ +L W H + + ++ A G + YF + +L S A D E
Sbjct: 416 FLQAHEHLSWLHEINSQELEKAHATLLGLANMETRYFAKKKTLLGLSKLAALASDFSEDM 475
Query: 362 LQEKLELLPEIERAFVH 378
LQEK+E + E ER +H
Sbjct: 476 LQEKIEEMAEQERFLLH 492
>pdb|2ZZT|A Chain A, Crystal Structure Of The Cytosolic Domain Of The Cation
Diffusion Facilitator Family Protein
Length = 107
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 329 VRAYTFGSHYFVEVDIVLPASMPLQEAHDIGESL-QEKLELLPEIERAFVHLD 380
VR G+ YF+E DI + +++AH++ + +E L+ +IE +H++
Sbjct: 31 VRIRRVGTKYFIEXDIEVDGKXSVKDAHELTVKIRKEXLKRRDDIEDVTIHVE 83
>pdb|1BOL|A Chain A, The Crystal Structure Of Ribonuclease Rh From Rhizopus
Niveus At 2.0 A Resolution
Length = 222
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/85 (22%), Positives = 34/85 (40%), Gaps = 12/85 (14%)
Query: 50 DCLGVLGPEDNVAEYYQQQVQMLEGFNEMDALAERGFVPGMTKEERENLARSETLAIRIS 109
DC +++ +Y+Q+ + + +N A + G PG T E + E+
Sbjct: 119 DCYDNYEEGEDIVDYFQKAMDLRSQYNVYKAFSSNGITPGGTYTATEMQSAIES------ 172
Query: 110 NVANMVLFAAKVYASVKSGSLAIIA 134
F AK SG+L+ +A
Sbjct: 173 ------YFGAKAKIDCSSGTLSDVA 191
>pdb|3CQG|B Chain B, Nucleoporin Nup107/nup133 Interaction Complex, Delta
Finger Mutant
Length = 227
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 314 YLCWNHHKSIRHIDTVRAYTFG-----SHYFVEVDIVLPASMPLQEAHDIGES-LQEKLE 367
+L W H + + ++ A G + YF + +L S A D E LQEK+E
Sbjct: 5 HLSWLHEINSQELEKAHATLLGLANMETRYFAKKKTLLGLSKLAALASDFSEDMLQEKIE 64
Query: 368 LLPEIERAFVH 378
+ E ER +H
Sbjct: 65 EMAEQERFLLH 75
>pdb|3CQC|B Chain B, Nucleoporin Nup107/nup133 Interaction Complex
Length = 227
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 6/70 (8%)
Query: 315 LCWNHHKSIRHIDTVRAYTFG-----SHYFVEVDIVLPASMPLQEAHDIGES-LQEKLEL 368
L W H + + ++ A G + YF + +L S A D E LQEK+E
Sbjct: 6 LSWLHEINSQELEKAHATLLGLANMETRYFAKKKTLLGLSKLAALASDFSEDMLQEKIEE 65
Query: 369 LPEIERAFVH 378
+ E ER +H
Sbjct: 66 MAEQERFLLH 75
>pdb|2QFI|A Chain A, Structure Of The Zinc Transporter Yiip
pdb|2QFI|B Chain B, Structure Of The Zinc Transporter Yiip
Length = 300
Score = 28.1 bits (61), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 28/134 (20%), Positives = 62/134 (46%), Gaps = 1/134 (0%)
Query: 233 CRAFTNEIVKAYAQDHFFDVITNIIGLVAVLLANYIDDWMDPVGAIILALYTIRTWSMTV 292
R ++ V+A + DV+ N L+A+ L+ Y D + A+ + +Y + +
Sbjct: 139 VRRTQSQAVRADMLHYQSDVMMNGAILLALGLSWYGWHRADALFALGIGIYILYSALRMG 198
Query: 293 LENVNSLVGRSAAPEYLQKLTYLCWNHHKSIRHIDTVRAYTFGSHYFVEVDIVLPASMPL 352
E V SL+ R+ E Q++ + + +R G F+++ + + S+PL
Sbjct: 199 YEAVQSLLDRALPDEERQEIIDIV-TSWPGVSGAHDLRTRQSGPTRFIQIHLEMEDSLPL 257
Query: 353 QEAHDIGESLQEKL 366
+AH + + +++ +
Sbjct: 258 VQAHMVADQVEQAI 271
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 0.135 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,823,342
Number of Sequences: 62578
Number of extensions: 412371
Number of successful extensions: 821
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 821
Number of HSP's gapped (non-prelim): 8
length of query: 394
length of database: 14,973,337
effective HSP length: 101
effective length of query: 293
effective length of database: 8,652,959
effective search space: 2535316987
effective search space used: 2535316987
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)