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= 004035
(777 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GK9|A Chain A, Human Phosphatidylinositol-4-Phosphate 5-Kinase, Type Ii,
Gamma
pdb|2GK9|B Chain B, Human Phosphatidylinositol-4-Phosphate 5-Kinase, Type Ii,
Gamma
pdb|2GK9|C Chain C, Human Phosphatidylinositol-4-Phosphate 5-Kinase, Type Ii,
Gamma
pdb|2GK9|D Chain D, Human Phosphatidylinositol-4-Phosphate 5-Kinase, Type Ii,
Gamma
Length = 392
Score = 126 bits (317), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 121/409 (29%), Positives = 187/409 (45%), Gaps = 67/409 (16%)
Query: 390 GIRHSVGR----PAPATSL--DLKASAFDPKEKVWTKFPPEGSKHTPPHQSCEFKWKDYC 443
G+ HS+ P P L D KAS+ K+ ++ P H FK+K+YC
Sbjct: 25 GVAHSINELSQVPPPVMLLPDDFKASS-----KIKVNNHLFHRENLPSH----FKFKEYC 75
Query: 444 PVVFRTLRKLFNVDAADYMISICGNDALRELSSPGKSGSFFYLTNDDKYMIKTMKKAEVK 503
P VFR LR F +D DY++S+ N S G+ F ++ D +IK + ++
Sbjct: 76 PQVFRNLRDRFGIDDQDYLVSLTRNPPSESEGSDGR----FLISYDRTLVIKEVSSEDIA 131
Query: 504 VLIRMLPAYYNH-VRAFENTLVTKFFGLHCVKLTGTAQKKVRFVIMGNLFCSEYVIHRRF 562
+ L Y+ + V+ NTL+ +F G++ V + + ++M N+F +HR++
Sbjct: 132 DMHSNLSNYHQYIVKCHGNTLLPQFLGMYRVSVDN---EDSYMLVMRNMFSHRLPVHRKY 188
Query: 563 DLKGSSHGRTTAKPQTAVDPTTTLKDLDLNFIFRLQKVWFQE-----FCRQVDRDCDFLE 617
DLKGS R A + V TL+D+D F+ + QKV+ E F ++ RD +FL
Sbjct: 189 DLKGSLVSR-EASDKEKVKELPTLRDMD--FLNKNQKVYIGEEEKKIFLEKLKRDVEFLV 245
Query: 618 QERIMDYSLLIGVHFREAVSYRDSHTPPRTSGARTPRGNAELDNEPAAPRLSRVDMDQLL 677
Q +IMDYSLL+G+H RG+ + P S VD D L
Sbjct: 246 QLKIMDYSLLLGIH-------------------DIIRGSEPEEEAPVREDESEVDGDCSL 286
Query: 678 LDPT----RWASIKLGVNMPARVEQTVRRNDCETQL--------IGEPTGELYDVILYFG 725
P + + G+ + + + E+ + G P E+Y + G
Sbjct: 287 TGPPALVGSYGTSPEGIGGYIHSHRPLGPGEFESFIDVYAIRSAEGAPQKEVY----FMG 342
Query: 726 IIDILQDYDISKKLEHAYKSMQYDP-TSISAVDPRQYSRRFRDFIYRAF 773
+IDIL YD KK HA K++++ IS V P QY++RF DFI F
Sbjct: 343 LIDILTQYDAKKKAAHAAKTVKHGAGAEISTVHPEQYAKRFLDFITNIF 391
>pdb|2YBX|A Chain A, Crystal Structure Of Human
Phosphatidylinositol-5-Phosphate 4-Kinase Type-2 Alpha
pdb|2YBX|B Chain B, Crystal Structure Of Human
Phosphatidylinositol-5-Phosphate 4-Kinase Type-2 Alpha
Length = 394
Score = 120 bits (301), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 112/408 (27%), Positives = 187/408 (45%), Gaps = 64/408 (15%)
Query: 383 LMLNLQLGIRHSVGRPAPATSLDLKASAFDPKEKVWTKFPPEGSKHTPPHQSCEFKWKDY 442
L+ L G+ HS+ + + + K ++K + + FK+K+Y
Sbjct: 26 LLSVLMWGVNHSINE---LSHVQIPVMLMPDDFKAYSKIKVDNHLFNKENMPSHFKFKEY 82
Query: 443 CPVVFRTLRKLFNVDAADYMISICGNDALRELSSPGKSGSFFYLTNDDKYMIKTMKKAEV 502
CP+VFR LR+ F +D D+ S+ + L S +SG+ F+ + D +Y+IKT+ +V
Sbjct: 83 CPMVFRNLRERFGIDDQDFQNSLTRSAPLPN-DSQARSGARFHTSYDKRYIIKTITSEDV 141
Query: 503 KVLIRMLPAYYNH-VRAFENTLVTKFFGLHCVKLTGTAQKKVRFVIMGNLFCSEYVIHRR 561
+ +L Y+ + V TL+ +F G++ + + G ++ ++ N+F ++R+
Sbjct: 142 AEMHNILKKYHQYIVECHGITLLPQFLGMYRLNVDGV---EIYVIVTRNVFSHRLSVYRK 198
Query: 562 FDLKGSSHGRTTAKPQTAVDPTTTLKDLDLNFIFRLQKVWFQE-----FCRQVDRDCDFL 616
+DLKGS+ R + + A + TLKD D FI QK++ + F ++ +D +FL
Sbjct: 199 YDLKGSTVAREASDKEKAKE-LPTLKDND--FINEGQKIYIDDNNKKVFLEKLKKDVEFL 255
Query: 617 EQERIMDYSLLIGVHFREAVSYRDSH--------------TPPRTSGARTPRGNAELDNE 662
Q ++MDYSLL+G+H E + T P + +P GN +
Sbjct: 256 AQLKLMDYSLLVGIHDVERAEQEEVECEENDGEEEGESDGTHPVGTPPDSP-GNTLNSSP 314
Query: 663 PAAPRLSRVDMDQLLLDPTRWASIKLGVNMPARVEQTVRRNDCETQLIGEPTGELYDVIL 722
P AP ++D IK N P + E+Y
Sbjct: 315 PLAPGEFDPNID--------VYGIKCHENSPRK--------------------EVY---- 342
Query: 723 YFGIIDILQDYDISKKLEHAYKSMQYDP-TSISAVDPRQYSRRFRDFI 769
+ II IL YD KK HA K++++ IS V+P QYS+RF DFI
Sbjct: 343 FMAIIXILTHYDAKKKAAHAAKTVKHGAGAEISTVNPEQYSKRFLDFI 390
>pdb|1BO1|A Chain A, Phosphatidylinositol Phosphate Kinase Type Ii Beta
pdb|1BO1|B Chain B, Phosphatidylinositol Phosphate Kinase Type Ii Beta
Length = 416
Score = 115 bits (288), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 71/201 (35%), Positives = 112/201 (55%), Gaps = 13/201 (6%)
Query: 437 FKWKDYCPVVFRTLRKLFNVDAADYMISICGNDALRELSSPGKSGSFFYLTNDDKYMIKT 496
FK+K+YCP+VFR LR+ F +D DY S+ + + S G+ G+ F T D +++IKT
Sbjct: 93 FKFKEYCPMVFRNLRERFGIDDQDYQNSVTRSAPINS-DSQGRCGTRFLTTYDRRFVIKT 151
Query: 497 MKKAEVKVLIRMLPAYYNH-VRAFENTLVTKFFGLHCVKLTGTAQKKVRFVIMGNLFCSE 555
+ +V + +L Y+ V NTL+ +F G++ + + G + V+ N+F
Sbjct: 152 VSSEDVAEMHNILKKYHQFIVECHGNTLLPQFLGMYRLTVDGV---ETYMVVTRNVFSHR 208
Query: 556 YVIHRRFDLKGSSHGRTTAKPQTAVDPTTTLKDLDLNFIFRLQKVWFQE-----FCRQVD 610
+HR++DLKGS+ R + + A D T KD D F+ QK+ E F ++
Sbjct: 209 LTVHRKYDLKGSTVAREASDKEKAKD-LPTFKDND--FLNEGQKLHVGEESKKNFLEKLK 265
Query: 611 RDCDFLEQERIMDYSLLIGVH 631
RD +FL Q +IMDYSLL+G+H
Sbjct: 266 RDVEFLAQLKIMDYSLLVGIH 286
Score = 37.0 bits (84), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 35/60 (58%), Gaps = 5/60 (8%)
Query: 711 GEPTGELYDVILYFGIIDILQDYDISKKLEHAYKSMQYDP-TSISAVDPRQYSRRFRDFI 769
P E+Y + IIDIL YD KK HA K++++ IS V+P QYS+RF +F+
Sbjct: 356 SSPKKEVY----FMAIIDILTPYDTKKKAAHAAKTVKHGAGAEISTVNPEQYSKRFNEFM 411
>pdb|3CUE|B Chain B, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|H Chain H, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|N Chain N, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|T Chain T, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
Length = 283
Score = 34.3 bits (77), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 11/73 (15%)
Query: 601 WFQEFCRQVDRDC----DFLEQERIMDYSLLIGVHFREAVSYRDSHTPPRTSGARTPRGN 656
FQE Q+ R C DF + ++ DY IG+ E +++R S +P + PR +
Sbjct: 65 LFQEMISQLHRTCKTAGDF--ETKLSDYGHNIGIRLLELLNFRASVSP-----SSLPRAS 117
Query: 657 AELDNEPAAPRLS 669
A L ++ +LS
Sbjct: 118 AFLSQNESSSKLS 130
>pdb|2FKN|A Chain A, Crystal Structure Of Urocanase From Bacillus Subtilis
pdb|2FKN|B Chain B, Crystal Structure Of Urocanase From Bacillus Subtilis
pdb|2FKN|C Chain C, Crystal Structure Of Urocanase From Bacillus Subtilis
pdb|2FKN|D Chain D, Crystal Structure Of Urocanase From Bacillus Subtilis
Length = 552
Score = 29.6 bits (65), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 4/52 (7%)
Query: 702 RNDCETQLIGEPTGELYDVILYFGIIDILQDYDISKKLEHAYKSMQYDPTSI 753
RN+ + ++ +P D+I+Y GI +D+D +EH+ K+++ D T +
Sbjct: 31 RNNLDPEVAEKPE----DLIVYGGIGKAARDWDAFHAIEHSLKTLKNDETLL 78
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
0.318 0.137 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,829,206
Number of Sequences: 62578
Number of extensions: 1406055
Number of successful extensions: 2869
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2827
Number of HSP's gapped (non-prelim): 38
length of query: 777
length of database: 14,973,337
effective HSP length: 106
effective length of query: 671
effective length of database: 8,340,069
effective search space: 5596186299
effective search space used: 5596186299
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)