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= 003122
(846 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 43.5 bits (101), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 27/48 (56%)
Query: 375 YNALMAAYASHGMSKEALSVFNEIKKNGLCPDIVSYTSLLNAYGRSQQ 422
YNA+M +A G KE + V +K GL PD++SY + L GR Q
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQ 215
Score = 35.0 bits (79), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 29/46 (63%)
Query: 580 LTNQVYSSVISAYSKQGLIAEAESMFNMMKMSGCSPDVITYTAMLH 625
LT +Y++V+ +++QG E + M+K +G +PD+++Y A L
Sbjct: 163 LTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208
>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp
Length = 195
Score = 35.8 bits (81), Expect = 0.10, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 32/57 (56%), Gaps = 5/57 (8%)
Query: 130 LIKEITQRGAINHSNQVFNWMKNQKNYCARNDIYNMMI--RLHARHNQIDKARGLFF 184
L+ ++T+R ++ NW+ + YC RNDI N ++ ++ + ++D+ GL F
Sbjct: 93 LVYDVTRRDTFV---KLDNWLNELETYCTRNDIVNXLVGNKIDKENREVDRNEGLKF 146
>pdb|3NF1|A Chain A, Crystal Structure Of The Tpr Domain Of Kinesin Light Chain
1
Length = 311
Score = 34.3 bits (77), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 66/159 (41%), Gaps = 28/159 (17%)
Query: 193 PDAET-YNALISAHGRAGQWRWAMNIFDDML----------RAAVAPSRSTYNNLINACG 241
PD T N L + +++ A N+ +D L AVA +T NNL G
Sbjct: 66 PDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVA---ATLNNLAVLYG 122
Query: 242 STGNWREALKVCKK---MTENGVG---PDLVTH--NIVLSAYKNGA------QYSKALSY 287
G ++EA +CK+ + E +G PD+ N+ L G Y +AL
Sbjct: 123 KRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEI 182
Query: 288 FELMKGTNIRPDTTTHNIVIYCLVKLGQYDKAIDLFHSM 326
++ G + T N + C +K G++ +A L+ +
Sbjct: 183 YQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEI 221
Score = 33.9 bits (76), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 50/199 (25%), Positives = 84/199 (42%), Gaps = 29/199 (14%)
Query: 228 PSR-STYNNLINACGSTGNWREALKVCKKMTEN------GVGPDLVTH-NIVLSAYKNGA 279
P+R T +NL+ S G + A+ +CK+ E+ PD+ T NI+ Y++
Sbjct: 24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQN 83
Query: 280 QY-------SKALSYFELMKGTNIRPDTTTHNIVIYCLVKLGQYDKAIDLFHSMREKRSE 332
+Y + AL+ E G + T N + K G+Y +A L E R +
Sbjct: 84 KYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREK 143
Query: 333 CL----PDIVTFTSIIHLYSVN-GQIENCK-------GVFNTMLAEGLKPNIV-SYNALM 379
L PD+ + + L N G+ E + ++ T L PN+ + N L
Sbjct: 144 VLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPD-DPNVAKTKNNLA 202
Query: 380 AAYASHGMSKEALSVFNEI 398
+ Y G K+A +++ EI
Sbjct: 203 SCYLKQGKFKQAETLYKEI 221
>pdb|3CEQ|A Chain A, The Tpr Domain Of Human Kinesin Light Chain 2 (Hklc2)
pdb|3CEQ|B Chain B, The Tpr Domain Of Human Kinesin Light Chain 2 (Hklc2)
Length = 283
Score = 32.7 bits (73), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 61/159 (38%), Gaps = 28/159 (17%)
Query: 193 PDAET-YNALISAHGRAGQWRWAMNIFDDML----------RAAVAPSRSTYNNLINACG 241
PD T N L + +++ A ++ +D L AVA +T NNL G
Sbjct: 40 PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVA---ATLNNLAVLYG 96
Query: 242 STGNWREALKVCKKMTE------NGVGPDLVTH--NIVLSAYKNGAQ------YSKALSY 287
G ++EA +CK+ E PD+ N+ L G Y +AL
Sbjct: 97 KRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLSNLALLCQNQGKAEEVEYYYRRALEI 156
Query: 288 FELMKGTNIRPDTTTHNIVIYCLVKLGQYDKAIDLFHSM 326
+ G + T N + C +K G+Y A L+ +
Sbjct: 157 YATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI 195
>pdb|3EDT|B Chain B, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|D Chain D, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|F Chain F, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|H Chain H, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
Length = 283
Score = 32.7 bits (73), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 61/159 (38%), Gaps = 28/159 (17%)
Query: 193 PDAET-YNALISAHGRAGQWRWAMNIFDDML----------RAAVAPSRSTYNNLINACG 241
PD T N L + +++ A ++ +D L AVA +T NNL G
Sbjct: 40 PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVA---ATLNNLAVLYG 96
Query: 242 STGNWREALKVCKKMTE------NGVGPDLVTH--NIVLSAYKNGAQ------YSKALSY 287
G ++EA +CK+ E PD+ N+ L G Y +AL
Sbjct: 97 KRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEI 156
Query: 288 FELMKGTNIRPDTTTHNIVIYCLVKLGQYDKAIDLFHSM 326
+ G + T N + C +K G+Y A L+ +
Sbjct: 157 YATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI 195
>pdb|2OXB|A Chain A, Crystal Structure Of A Cell-Wall Invertase (E203q) From
Arabidopsis Thaliana In Complex With Sucrose
Length = 537
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 53/114 (46%), Gaps = 8/114 (7%)
Query: 386 GMSKEALSVFNEIKKNGLCPDIVSYTSLLNAYGRS--QQPVKAREVFNMMRINNLKPNLV 443
G + E+ SV ++++K + L+ G+ Q PV+ E ++ NL+ ++
Sbjct: 292 GWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKNLRNKVL 351
Query: 444 SYSALIDAYGSNGLLAEAVEVF--REMEQ-DGIEPNIVS---ICTLLAACGRCG 491
+ ++ YG A+ +F R++E+ D IEP+ IC+ + + G
Sbjct: 352 KSGSRLEVYGVTAAQADVEVLFKVRDLEKADVIEPSWTDPQLICSKMNVSVKSG 405
>pdb|2QQU|A Chain A, Crystal Structure Of A Cell-Wall Invertase (D239a) From
Arabidopsis Thaliana In Complex With Sucrose
Length = 535
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 53/114 (46%), Gaps = 8/114 (7%)
Query: 386 GMSKEALSVFNEIKKNGLCPDIVSYTSLLNAYGRS--QQPVKAREVFNMMRINNLKPNLV 443
G + E+ SV ++++K + L+ G+ Q PV+ E ++ NL+ ++
Sbjct: 292 GWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKNLRNKVL 351
Query: 444 SYSALIDAYGSNGLLAEAVEVF--REMEQ-DGIEPNIVS---ICTLLAACGRCG 491
+ ++ YG A+ +F R++E+ D IEP+ IC+ + + G
Sbjct: 352 KSGSRLEVYGVTAAQADVEVLFKVRDLEKADVIEPSWTDPQLICSKMNVSVKSG 405
>pdb|2XQR|A Chain A, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|C Chain C, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|E Chain E, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|G Chain G, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|I Chain I, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|K Chain K, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
Length = 537
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 53/114 (46%), Gaps = 8/114 (7%)
Query: 386 GMSKEALSVFNEIKKNGLCPDIVSYTSLLNAYGRS--QQPVKAREVFNMMRINNLKPNLV 443
G + E+ SV ++++K + L+ G+ Q PV+ E ++ NL+ ++
Sbjct: 292 GWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKNLRNKVL 351
Query: 444 SYSALIDAYGSNGLLAEAVEVF--REMEQ-DGIEPNIVS---ICTLLAACGRCG 491
+ ++ YG A+ +F R++E+ D IEP+ IC+ + + G
Sbjct: 352 KSGSRLEVYGVTAAQADVEVLFKVRDLEKADVIEPSWTDPQLICSKMNVSVKSG 405
>pdb|2QQW|A Chain A, Crystal Structure Of A Cell-Wall Invertase (D23a) From
Arabidopsis Thaliana In Complex With Sucrose
Length = 537
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 53/114 (46%), Gaps = 8/114 (7%)
Query: 386 GMSKEALSVFNEIKKNGLCPDIVSYTSLLNAYGRS--QQPVKAREVFNMMRINNLKPNLV 443
G + E+ SV ++++K + L+ G+ Q PV+ E ++ NL+ ++
Sbjct: 292 GWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKNLRNKVL 351
Query: 444 SYSALIDAYGSNGLLAEAVEVF--REMEQ-DGIEPNIVS---ICTLLAACGRCG 491
+ ++ YG A+ +F R++E+ D IEP+ IC+ + + G
Sbjct: 352 KSGSRLEVYGVTAAQADVEVLFKVRDLEKADVIEPSWTDPQLICSKMNVSVKSG 405
>pdb|2QQV|A Chain A, Crystal Structure Of A Cell-Wall Invertase (E203a) From
Arabidopsis Thaliana In Complex With Sucrose
Length = 537
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 53/114 (46%), Gaps = 8/114 (7%)
Query: 386 GMSKEALSVFNEIKKNGLCPDIVSYTSLLNAYGRS--QQPVKAREVFNMMRINNLKPNLV 443
G + E+ SV ++++K + L+ G+ Q PV+ E ++ NL+ ++
Sbjct: 292 GWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKNLRNKVL 351
Query: 444 SYSALIDAYGSNGLLAEAVEVF--REMEQ-DGIEPNIVS---ICTLLAACGRCG 491
+ ++ YG A+ +F R++E+ D IEP+ IC+ + + G
Sbjct: 352 KSGSRLEVYGVTAAQADVEVLFKVRDLEKADVIEPSWTDPQLICSKMNVSVKSG 405
>pdb|2AC1|A Chain A, Crystal Structure Of A Cell-Wall Invertase From
Arabidopsis Thaliana
Length = 541
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 53/114 (46%), Gaps = 8/114 (7%)
Query: 386 GMSKEALSVFNEIKKNGLCPDIVSYTSLLNAYGRS--QQPVKAREVFNMMRINNLKPNLV 443
G + E+ SV ++++K + L+ G+ Q PV+ E ++ NL+ ++
Sbjct: 296 GWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKNLRNKVL 355
Query: 444 SYSALIDAYGSNGLLAEAVEVF--REMEQ-DGIEPNIVS---ICTLLAACGRCG 491
+ ++ YG A+ +F R++E+ D IEP+ IC+ + + G
Sbjct: 356 KSGSRLEVYGVTAAQADVEVLFKVRDLEKADVIEPSWTDPQLICSKMNVSVKSG 409
>pdb|2FE7|A Chain A, The Crystal Structure Of A Probable N-Acetyltransferase
From Pseudomonas Aeruginosa
pdb|2FE7|B Chain B, The Crystal Structure Of A Probable N-Acetyltransferase
From Pseudomonas Aeruginosa
Length = 166
Score = 30.4 bits (67), Expect = 3.8, Method: Composition-based stats.
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 54 LVDYDKGQHEVSTQVSGLRKS 74
L DY++ +HEV T V G+R+S
Sbjct: 31 LADYERARHEVVTDVEGIRRS 51
>pdb|2DE0|X Chain X, Crystal Structure Of Human Alpha 1,6-fucosyltransferase,
Fut8
Length = 526
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 53/105 (50%), Gaps = 20/105 (19%)
Query: 247 REALKVCKKMTENGVGPDLVTHNIVLSAYKNGAQYSKALSYF---ELMKGTNIRPDTTTH 303
+E ++ KK T NG+G D H I+ +NGA K L +F EL K N+ +
Sbjct: 32 KEQIENYKKQTRNGLGKD---HEILRRRIENGA---KELWFFLQSELKKLKNLEGNELQR 85
Query: 304 NIVIYCLVKLGQYDKAI--DLFH--------SMREKRSECLPDIV 338
+ + L+ LG ++++I DL++ REK ++ L ++V
Sbjct: 86 HADEF-LLDLGHHERSIMTDLYYLSQTDGAGDWREKEAKDLTELV 129
>pdb|3H38|A Chain A, The Structure Of Cca-Adding Enzyme Apo Form Ii
pdb|3H39|A Chain A, The Complex Structure Of Cca-Adding Enzyme With Atp
pdb|3H39|B Chain B, The Complex Structure Of Cca-Adding Enzyme With Atp
pdb|3H3A|A Chain A, The Complex Structure Of Cca-Adding Enzyme With Ctp
pdb|3H3A|B Chain B, The Complex Structure Of Cca-Adding Enzyme With Ctp
Length = 441
Score = 29.6 bits (65), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 47/93 (50%), Gaps = 9/93 (9%)
Query: 462 VEVFREMEQ---DGIEPNIVSICTLLAACGRCGRKVNIDAVLLAAEMRDIKLNTVAYNSA 518
+++FR++ + + ++P I+++ LL G+ G +VN+ ++ +RD+ L +
Sbjct: 1 MQIFRDVSKLLVERVDPKILNLFRLL---GKFGDEVNMPVYVVGGFVRDLLLGIKNLDID 57
Query: 519 I---GSYMNVGEYEKAIALYKCMKKRKVMPDSV 548
I G+ + EY K K +K K M S+
Sbjct: 58 IVVEGNALEFAEYAKRFLPGKLVKHDKFMTASL 90
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
0.320 0.133 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,340,237
Number of Sequences: 62578
Number of extensions: 922116
Number of successful extensions: 1990
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1970
Number of HSP's gapped (non-prelim): 37
length of query: 846
length of database: 14,973,337
effective HSP length: 107
effective length of query: 739
effective length of database: 8,277,491
effective search space: 6117065849
effective search space used: 6117065849
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)