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= 001796
(1012 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T1H|A Chain A, Nmr Solution Structure Of The U Box Domain From Atpub14,
An Armadillo Repeat Containing Protein From Arabidopsis
Thaliana
Length = 78
Score = 49.7 bits (117), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 37/67 (55%)
Query: 262 FKCRITGTVMMDPVSLYTGTTCERAAIEAWLDRREKTDPETGVVLEDTSLRSNSPLRQSI 321
F+C I+ +M DPV + TG T ER++I+ WLD KT P++ L L N L+ I
Sbjct: 9 FRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLI 68
Query: 322 EEWKELN 328
W E N
Sbjct: 69 ALWCESN 75
>pdb|4HXT|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or329
Length = 252
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 54/209 (25%), Positives = 94/209 (44%), Gaps = 18/209 (8%)
Query: 585 AGGIPQVLELMFSSHVPSNIIVKCSEILEKLSS---DGIKFLVDEKGNRLELEPIVTNLL 641
AGG+ +++L+ S+ S + + + L ++S + IK +VD G ++ LL
Sbjct: 43 AGGVEVLVKLLTSTD--SEVQKEAARALANIASGPDEAIKAIVDAGGVE-----VLVKLL 95
Query: 642 TLQQNFNSSYNVRKPALRALFRICKSEAELVKIAVVKANGVXXXXXXXXXXXXEVREIAI 701
T ++ V+K A RAL I E +K A+V A GV EV++ A
Sbjct: 96 T-----STDSEVQKEAARALANIASGPDEAIK-AIVDAGGVEVLVKLLTSTDSEVQKEAA 149
Query: 702 NLLFLFSHHEPEGVVEYLLKPKRLEALVGFLENDAKHDVQMAAAGLLANLPKSELSLTMK 761
L + P+ ++ ++ +E LV L + +VQ AA LAN+ S
Sbjct: 150 RALANIASG-PDEAIKAIVDAGGVEVLVKLLTS-TDSEVQKEAARALANIASGPTSAIKA 207
Query: 762 LIELDGLNAIINILKSGTMEAKENALSAL 790
+++ G+ + +L S E ++ A AL
Sbjct: 208 IVDAGGVEVLQKLLTSTDSEVQKEAQRAL 236
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 74/171 (43%), Gaps = 4/171 (2%)
Query: 648 NSSYNVRKPALRALFRICKSEAELVKIAVVKANGVXXXXXXXXXXXXEVREIAINLLFLF 707
++ +K A R L I A +K A+V A GV EV++ A L
Sbjct: 13 STDSETQKEAARDLAEIASGPASAIK-AIVDAGGVEVLVKLLTSTDSEVQKEAARALANI 71
Query: 708 SHHEPEGVVEYLLKPKRLEALVGFLENDAKHDVQMAAAGLLANLPKSELSLTMKLIELDG 767
+ P+ ++ ++ +E LV L + +VQ AA LAN+ +++ G
Sbjct: 72 ASG-PDEAIKAIVDAGGVEVLVKLLTS-TDSEVQKEAARALANIASGPDEAIKAIVDAGG 129
Query: 768 LNAIINILKSGTMEAKENALSALFRFTDPTNLEAQRNVVERGVYPLLVNLL 818
+ ++ +L S E ++ A AL + EA + +V+ G +LV LL
Sbjct: 130 VEVLVKLLTSTDSEVQKEAARALANIASGPD-EAIKAIVDAGGVEVLVKLL 179
>pdb|2KR4|A Chain A, U-Box Domain Of The E3 Ubiquitin Ligase E4b
Length = 85
Score = 33.1 bits (74), Expect = 0.77, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 254 NYIQPLNAFKCRITGTVMMDPVSLYTGTTCERAAIEAWLDRREKTDPETGVVLEDTSLRS 313
+Y + F+ + T+M DPV L +GT +R+ I L TDP +L ++ L
Sbjct: 7 DYSDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHL-LNSPTDPFNRQMLTESMLEP 65
Query: 314 NSPLRQSIEEW 324
L++ I+ W
Sbjct: 66 VPELKEQIQAW 76
>pdb|2KRE|A Chain A, Solution Structure Of E4bUFD2A U-Box Domain
pdb|3L1X|A Chain A, Crystal Structure Of U-Box Domain Of Human E4b Ubiquitin
Ligase
pdb|3L1Z|B Chain B, Crystal Structure Of The U-Box Domain Of Human E4b
Ubiquitin Ligase In Complex With Ubch5c E2 Ubiquitin
Conjugating Enzyme
Length = 100
Score = 32.3 bits (72), Expect = 1.4, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 254 NYIQPLNAFKCRITGTVMMDPVSLYTGTTCERAAIEAWLDRREKTDPETGVVLEDTSLRS 313
+Y + F+ + T+M DPV L +GT +R+ I L TDP L ++ L
Sbjct: 22 DYSDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHL-LNSPTDPFNRQTLTESMLEP 80
Query: 314 NSPLRQSIEEW 324
L++ I+ W
Sbjct: 81 VPELKEQIQAW 91
>pdb|3IYG|Z Chain Z, Ca Model Of Bovine TricCCT DERIVED FROM A 4.0 ANGSTROM
Cryo-Em Map
Length = 517
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 26/38 (68%), Gaps = 2/38 (5%)
Query: 922 LHQEEAIKPTLEILTWGTDSLKEEALGFLEKVFMSKEM 959
L+ E + P I+T G ++ KE+AL FLE+V +SKEM
Sbjct: 100 LYISEGLHP--RIITEGFEAAKEKALQFLEQVKVSKEM 135
>pdb|4DB9|A Chain A, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|B Chain B, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|C Chain C, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|D Chain D, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|E Chain E, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|F Chain F, Designed Armadillo Repeat Protein (Yiiim3aiii)
Length = 210
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 77/193 (39%), Gaps = 36/193 (18%)
Query: 762 LIELDGLNAIINILKSGTMEAKENALSALFRFTDPTNLEAQRNVVERGVYPLLVNLLQIG 821
+I+ L A++ +L S + + AL AL N + Q V++ G P LV LL
Sbjct: 50 VIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQA-VIDAGALPALVQLL--- 105
Query: 822 SITAKARAAALIGTLSTSSPKFTDMPESAGCWCFRPSRAHLCQVHGGICSESTSFCLLKA 881
SSP + E+ W L + G ++ A
Sbjct: 106 -----------------SSPNEQILQEA--LWA-------LSNIASG--GNEQIQAVIDA 137
Query: 882 NALPHLVKLLQGRVHATAYEAIQTLSTLVQEGCQQRGVNVLHQEEAIKPTLEIL-TWGTD 940
ALP LV+LL EA+ LS + G +Q+ +E +P LE L + +
Sbjct: 138 GALPALVQLLSSPNEQILQEALWALSNIASGGNEQKQA---VKEAGAEPALEQLQSSPNE 194
Query: 941 SLKEEALGFLEKV 953
+++EA LEK+
Sbjct: 195 KIQKEAQEALEKI 207
>pdb|2YWX|A Chain A, Crystal Structure Of Phosphoribosylaminoimidazole
Carboxylase Catalytic Subunit From Methanocaldococcus
Jannaschii
Length = 157
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 33/57 (57%), Gaps = 7/57 (12%)
Query: 724 RLEALVGFLENDAKHDVQMAAAGLLANLPKSELSLTMKLI-------ELDGLNAIIN 773
R LV + ++K DV +A AGL A+LP SLT K + +LDGL+A+++
Sbjct: 38 RTPELVEEIVKNSKADVFIAIAGLAAHLPGVVASLTTKPVIAVPVDAKLDGLDALLS 94
>pdb|4GMN|A Chain A, Structural Basis Of Rpl5 Recognition By Syo1
Length = 676
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 45/181 (24%), Positives = 75/181 (41%), Gaps = 28/181 (15%)
Query: 815 VNLLQIGSITAKARAA-ALIGTLSTSSPKFTDMPESAG--CWCFRPSRAHLC-------- 863
V+L ++ +TA AA A++ TL+TS P F+ + ++ W S L
Sbjct: 113 VHLYRLDVLTAIEHAAKAVLETLTTSEPPFSKLLKAQQRLVWDITGSLLVLIGLLALARD 172
Query: 864 QVHGGICSESTS----FCLLKANALPHLVKLLQGRVHATAYEAIQTLSTLVQEGCQQRGV 919
++H + ++ T F L+ A+ P + EAI L+TL ++ +
Sbjct: 173 EIHEAVATKQTILRLLFRLISADIAPQDIY----------EEAISCLTTLSEDNLKVGQA 222
Query: 920 NVLHQEEAIKPTLEILTWGTDSLKEEALGFLEKVFMSKEMVDTY---GSSARLLLVPLTS 976
QE + L L GTD A G L VF S + +D + +L+P +
Sbjct: 223 ITDDQETHVYDVLLKLATGTDPRAVMACGVLHNVFTSLQWMDHSPGKDGACDAILIPTLT 282
Query: 977 R 977
R
Sbjct: 283 R 283
>pdb|4GMO|A Chain A, Crystal Structure Of Syo1
Length = 684
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 45/181 (24%), Positives = 75/181 (41%), Gaps = 28/181 (15%)
Query: 815 VNLLQIGSITAKARAA-ALIGTLSTSSPKFTDMPESAG--CWCFRPSRAHLC-------- 863
V+L ++ +TA AA A++ TL+TS P F+ + ++ W S L
Sbjct: 113 VHLYRLDVLTAIEHAAKAVLETLTTSEPPFSKLLKAQQRLVWDITGSLLVLIGLLALARD 172
Query: 864 QVHGGICSESTS----FCLLKANALPHLVKLLQGRVHATAYEAIQTLSTLVQEGCQQRGV 919
++H + ++ T F L+ A+ P + EAI L+TL ++ +
Sbjct: 173 EIHEAVATKQTILRLLFRLISADIAPQDIY----------EEAISCLTTLSEDNLKVGQA 222
Query: 920 NVLHQEEAIKPTLEILTWGTDSLKEEALGFLEKVFMSKEMVDTY---GSSARLLLVPLTS 976
QE + L L GTD A G L VF S + +D + +L+P +
Sbjct: 223 ITDDQETHVYDVLLKLATGTDPRAVMACGVLHNVFTSLQWMDHSPGKDGACDAILIPTLT 282
Query: 977 R 977
R
Sbjct: 283 R 283
>pdb|4DB8|A Chain A, Designed Armadillo-Repeat Protein
pdb|4DB8|B Chain B, Designed Armadillo-Repeat Protein
pdb|4DB8|C Chain C, Designed Armadillo-Repeat Protein
pdb|4DB8|D Chain D, Designed Armadillo-Repeat Protein
Length = 252
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 54/242 (22%), Positives = 96/242 (39%), Gaps = 43/242 (17%)
Query: 762 LIELDGLNAIINILKSGTMEAKENALSALFRFTDPTNLEAQRNVVERGVYPLLVNLLQIG 821
+I+ L A++ +L S + + AL AL N + Q V++ G P LV LL
Sbjct: 50 VIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQA-VIDAGALPALVQLL--- 105
Query: 822 SITAKARAAALIGTLSTSSPKFTDMPESAGCWCFRPSRAHLCQVHGGICSESTSFCLLKA 881
SSP + E+ W L + G + ++ A
Sbjct: 106 -----------------SSPNEQILQEA--LWA-------LSNIASGGNEQIQ--AVIDA 137
Query: 882 NALPHLVKLLQGRVHATAYEAIQTLSTLVQEGCQQRGVNVLHQEEAIKPTLEILTWGTDS 941
ALP LV+LL EA+ LS + G +Q + + A+ +++L+ +
Sbjct: 138 GALPALVQLLSSPNEQILQEALWALSNIASGGNEQ--IQAVIDAGALPALVQLLSSPNEQ 195
Query: 942 LKEEALGFLEKVFMS----KEMVDTYGSSARLLLVPLTSRNVHEDGSLERKAAKVLSLIE 997
+ +EAL L + K+ V G+ L L HE+ ++++A + L ++
Sbjct: 196 ILQEALWALSNIASGGNEQKQAVKEAGA-----LEKLEQLQSHENEKIQKEAQEALEKLQ 250
Query: 998 RY 999
+
Sbjct: 251 SH 252
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 48/202 (23%), Positives = 78/202 (38%), Gaps = 33/202 (16%)
Query: 716 VEYLLKPKRLEALVGFLENDAKHDVQMAAAGLLANLPKSELSLTMKLIELDGLNAIINIL 775
++ ++ L ALV L + + +Q A L +N+ +I+ L A++ +L
Sbjct: 47 IQAVIDAGALPALVQLLSSPNEQILQEALWAL-SNIASGGNEQIQAVIDAGALPALVQLL 105
Query: 776 KSGTMEAKENALSALFRFTDPTNLEAQRNVVERGVYPLLVNLLQIGSITAKARAAALIGT 835
S + + AL AL N + Q V++ G P LV LL
Sbjct: 106 SSPNEQILQEALWALSNIASGGNEQIQA-VIDAGALPALVQLL----------------- 147
Query: 836 LSTSSPKFTDMPESAGCWCFRPSRAHLCQVHGGICSESTSFCLLKANALPHLVKLLQGRV 895
SSP + E+ W L + G + ++ A ALP LV+LL
Sbjct: 148 ---SSPNEQILQEA--LWA-------LSNIASGGNEQIQ--AVIDAGALPALVQLLSSPN 193
Query: 896 HATAYEAIQTLSTLVQEGCQQR 917
EA+ LS + G +Q+
Sbjct: 194 EQILQEALWALSNIASGGNEQK 215
>pdb|1WGM|A Chain A, Solution Structure Of The U-Box In Human Ubiquitin
Conjugation Factor E4a
Length = 98
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 253 ENYIQPLNAFKCRITGTVMMDPVSLYTG-TTCERAAIEAWLDRREKTDPETGVVLEDTSL 311
E Y + F I T+M DPV L + T +R+ I L ++TDP L +
Sbjct: 14 ETYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHL-LSDQTDPFNRSPLTMDQI 72
Query: 312 RSNSPLRQSIEEW 324
R N+ L++ I+ W
Sbjct: 73 RPNTELKEKIQRW 85
>pdb|2BTU|A Chain A, Crystal Structure Of Phosphoribosylformylglycinamidine
Cyclo-Ligase From Bacillus Anthracis At 2.3a Resolution.
pdb|2BTU|B Chain B, Crystal Structure Of Phosphoribosylformylglycinamidine
Cyclo-Ligase From Bacillus Anthracis At 2.3a Resolution
Length = 346
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 41/88 (46%), Gaps = 9/88 (10%)
Query: 903 IQTLSTLVQEGCQQRGVNVLHQEEAIKPTLEILTWGTDSLKEEAL-GFLEKVFMSKEMVD 961
I+ + + EGC+Q G ++ E A P G S +E L GF + K++V
Sbjct: 116 IENIVKGISEGCRQAGCALIGGETAEMP-------GMYSTEEYDLAGFTVGIVDKKKIVT 168
Query: 962 TYGSSARLLLVPLTSRNVHEDG-SLERK 988
A +L+ L S +H +G SL RK
Sbjct: 169 GEKIEAGHVLIGLASSGIHSNGYSLVRK 196
>pdb|1YVY|A Chain A, Crystal Strucutre Of Anaerobiospirillum Succiniciproducens
Phosphoenolpyruvate Carboxykinase
pdb|1YVY|B Chain B, Crystal Strucutre Of Anaerobiospirillum Succiniciproducens
Phosphoenolpyruvate Carboxykinase
pdb|1YTM|A Chain A, Crystal Structure Of Phosphoenolpyruvate Carboxykinase Of
Anaerobiospirillum Succiniciproducens Complexed With
Atp, Oxalate, Magnesium And Manganese Ions
pdb|1YTM|B Chain B, Crystal Structure Of Phosphoenolpyruvate Carboxykinase Of
Anaerobiospirillum Succiniciproducens Complexed With
Atp, Oxalate, Magnesium And Manganese Ions
Length = 532
Score = 30.0 bits (66), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%)
Query: 741 QMAAAGLLANLPKSELSLTMKLIELDGLNAIINILKSGTMEAKENALSALFRFTDPTNLE 800
+M A+G A L + + T K I + II+ + G+++ A F FT PT L+
Sbjct: 422 RMEASGAKAYLVNTGWNGTGKRISIKDTRGIIDAILDGSIDTANTATIPYFNFTVPTELK 481
Query: 801 A 801
Sbjct: 482 G 482
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 0.134 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,423,302
Number of Sequences: 62578
Number of extensions: 889002
Number of successful extensions: 2525
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 2508
Number of HSP's gapped (non-prelim): 39
length of query: 1012
length of database: 14,973,337
effective HSP length: 108
effective length of query: 904
effective length of database: 8,214,913
effective search space: 7426281352
effective search space used: 7426281352
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: 56 (26.2 bits)