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= 010136
(517 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 91/405 (22%), Positives = 173/405 (42%), Gaps = 52/405 (12%)
Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL 173
RE L P + RED+ +K+ EEK ++++ G GTGK+ V ++
Sbjct: 10 REYLLPDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKT----AVVKFV 65
Query: 174 VDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL 233
+ + L + + IN + + + +L L + G + Y + + + +
Sbjct: 66 LSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD 125
Query: 234 HSSVMKMMLIIADELDYLITR-DRAVLHDLFMLTT-FPFSRFILIGIANAIDLADRFLPR 291
+ S ++I+ DE+D + + + +L+ L + + S+ IGI N + D PR
Sbjct: 126 YGS---QVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPR 182
Query: 292 LQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQAL-----ELCARKVAAASGD 346
++S + ++ F Y+ +++ IL +R + + F+P L +LCA A GD
Sbjct: 183 VKSSLSEEEII-FPPYNAEELEDILTKR----AQMAFKPGVLPDNVIKLCAALAAREHGD 237
Query: 347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVAL 406
R+AL + R + EI E +M +++V+ +++ +A
Sbjct: 238 ARRALDLLRVSGEIAE--------RMK--------------------DTKVKEEYVYMAK 269
Query: 407 SNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGT 466
+ V D I +LP H +++L + V T G + ++Y+NICK + V
Sbjct: 270 EEIERDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVEAVTQ 329
Query: 467 LEFFSMCRVLHDQGVLKV-----GRDDKLKRVTLKADESDITFAL 506
+ L G+L GR K K + L D++ I +L
Sbjct: 330 RRVSDIINELDMVGILTAKVVNRGRYGKTKEIGLAVDKNIIVRSL 374
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 68.6 bits (166), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 95/405 (23%), Positives = 162/405 (40%), Gaps = 66/405 (16%)
Query: 123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL 182
P + RE E +++ E L EK + + G GTGK+ V L A G+
Sbjct: 18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGV 77
Query: 183 QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ--KLHSSVMKM 240
++ +N + S I + R G + + +Y + K S + +
Sbjct: 78 LVKPIY-VNARHRETPYRVASAIAEAVGVRVPFTGLS-----VGEVYERLVKRLSRLRGI 131
Query: 241 MLIIADELDYL------------ITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRF 288
+I+ DE+D+L ITR L D ++ L+GI N++ +
Sbjct: 132 YIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVS--------LVGITNSLGFVENL 183
Query: 289 LPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCARKVAAASGDM 347
PR++S + + + F Y+ Q+ IL+ R E + V P + LCA A GD
Sbjct: 184 EPRVKS-SLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDA 242
Query: 348 RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALS 407
R+AL + R A EI A +VR +H+ A +
Sbjct: 243 RRALDLLRVAGEI----------------------------AERRREERVRREHVYSARA 274
Query: 408 NTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPV--- 464
+ V + +++LP H +++L S + GG+ T GE+ + Y + T + V
Sbjct: 275 EIERDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPAST-GEIYERYKELTSTLGLEHVTLR 333
Query: 465 ---GTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFAL 506
G + M ++ + V+ GR K + V+L AD + AL
Sbjct: 334 RVSGIISELDMLGIVKSR-VVSRGRYGKTREVSLDADRLAVENAL 377
>pdb|2QBY|B Chain B, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 384
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 86/370 (23%), Positives = 148/370 (40%), Gaps = 71/370 (19%)
Query: 155 CGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSI-----NCTSLTNTSEIFSKILLKL 209
G GTGK+ V Y+ + +E + E + NC + T + +L L
Sbjct: 51 LGLTGTGKTF----VSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQ---AVLSSL 103
Query: 210 QPRKKLNGSTSPLQYLQNL--YSQKLHSSVMKMMLIIA-DELDYLITRDRA--VLHDLFM 264
KL G + P ++ NL Y K+ + + II DE+D L+ R VL+ L
Sbjct: 104 AG--KLTGFSVP-KHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLR 160
Query: 265 LTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS 324
+ +I I+N I++ D PR+ S + P V+ F+ Y +Q+ IL + E
Sbjct: 161 SD----ANISVIMISNDINVRDYMEPRVLS-SLGPSVI-FKPYDAEQLKFILS-KYAEYG 213
Query: 325 YI--VFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLF 382
I + + L A A GD RKA+++ A
Sbjct: 214 LIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRA------------------------- 248
Query: 383 DQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKD 442
Q AS +R +H+ A+ + + +++ +K+LP H ++ L S + +
Sbjct: 249 -AQLASG----GGIIRKEHVDKAIVDYEQERLIEAVKALPFHYKLALRSLI-------ES 296
Query: 443 MTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKV-----GRDDKLKRVTLKA 497
V +K Y ++C P+ F + L G++K+ GR +K+ L
Sbjct: 297 EDVMSAHKMYTDLCNKFKQKPLSYRRFSDIISELDMFGIVKIRIINRGRAGGVKKYALVE 356
Query: 498 DESDITFALQ 507
D+ + AL
Sbjct: 357 DKEKVLRALN 366
>pdb|3O1Q|A Chain A, Native Crystal Structure Of Helicobacter Pylori Urease
Accessory Protein Uref
pdb|3O1Q|B Chain B, Native Crystal Structure Of Helicobacter Pylori Urease
Accessory Protein Uref
pdb|3O1Q|C Chain C, Native Crystal Structure Of Helicobacter Pylori Urease
Accessory Protein Uref
pdb|3SF5|A Chain A, Crystal Structure Of Helicobacter Pylori Urease Accessory
Protein UrefH COMPLEX
pdb|3SF5|C Chain C, Crystal Structure Of Helicobacter Pylori Urease Accessory
Protein UrefH COMPLEX
Length = 254
Score = 35.4 bits (80), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 52/99 (52%), Gaps = 7/99 (7%)
Query: 212 RKKLNGSTSPLQYLQ-NLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPF 270
+KK+ S L+YL+ NL SQ L++ ++ + L L + + V ++ ML+T P
Sbjct: 60 QKKVTNKESALEYLKANLSSQFLYTEMLSLKLTYESALQQDLKKILGV-EEVIMLSTSPM 118
Query: 271 SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSK 309
+ +AN L +RF+ LQ+MN + F AY++
Sbjct: 119 E----LRLANQ-KLGNRFIKTLQAMNELDMGEFFNAYAQ 152
>pdb|3TE6|A Chain A, Crystal Structure Of The S. Cerevisiae Sir3 Aaa+ Domain
pdb|3TE6|B Chain B, Crystal Structure Of The S. Cerevisiae Sir3 Aaa+ Domain
Length = 318
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 334 ELCARKVAAASGDMRKALSVCRSAIEI 360
+L A+ VA SG KA +C +A+EI
Sbjct: 259 QLIAKNVANVSGSTEKAFKICEAAVEI 285
>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
Length = 412
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 56/237 (23%), Positives = 103/237 (43%), Gaps = 31/237 (13%)
Query: 155 CGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK 214
G G GK+ + + + A + GL + + +N + N I S I+ + +
Sbjct: 58 IGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAY-VNAFNAPNLYTILSLIVRQTGYPIQ 116
Query: 215 LNGSTSPLQYLQ----NLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFML----T 266
+ G+ + L L+ NLY + + +L+I DE +++ R DL+ L
Sbjct: 117 VRGAPA-LDILKALVDNLYVENHY------LLVILDEFQSMLSSPRIAAEDLYTLLRVHE 169
Query: 267 TFPFSR-------FILIGI-ANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQE 318
P SR F+L+ A+ +P+++S L AY ++ IL++
Sbjct: 170 EIP-SRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKL--HLPAYKSRELYTILEQ 226
Query: 319 RL-MELSYIVFQPQALELCARKVA---AASGDMRKALSVCRSAIEILEAEMRESVSK 371
R + L V++P+ LEL + G R+A+ + A E+ EA R+S+S+
Sbjct: 227 RAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSE 283
>pdb|1T90|A Chain A, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|B Chain B, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|C Chain C, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|D Chain D, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
Length = 486
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 8/79 (10%)
Query: 77 NEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKV 136
E+ M+ V++ + D F +K D++ + + + + + V RED +K+
Sbjct: 280 GERCMACAVVTVEEGIADEFMAKLQEKVADIKIGNGLDDGVFLGP-----VIREDNKKRT 334
Query: 137 LEFCKKNLEEEKAGSLYVC 155
L + +K LEE G+ VC
Sbjct: 335 LSYIEKGLEE---GARLVC 350
>pdb|3DQZ|A Chain A, Structure Of The Hydroxynitrile Lyase From Arabidopsis
Thaliana
pdb|3DQZ|B Chain B, Structure Of The Hydroxynitrile Lyase From Arabidopsis
Thaliana
pdb|3DQZ|C Chain C, Structure Of The Hydroxynitrile Lyase From Arabidopsis
Thaliana
pdb|3DQZ|D Chain D, Structure Of The Hydroxynitrile Lyase From Arabidopsis
Thaliana
Length = 258
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 25/37 (67%), Gaps = 3/37 (8%)
Query: 403 AVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGG 439
AV + + P+++T+KSLP++++++L V F GG
Sbjct: 51 AVETVDEYSKPLIETLKSLPENEEVIL---VGFSFGG 84
>pdb|3POY|A Chain A, Crystal Structure Of The Alpha-Neurexin-1 Ectodomain, Lns
2-6
Length = 1019
Score = 28.9 bits (63), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 105 QDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEF-CKKNLEEEKAGSLYVCGCPGTG 161
+D+ QM+ V+ STA C + K L CK N + YVC C GTG
Sbjct: 371 KDIRQMAEVQ-----STAGVKPSCSRETAKPCLSNPCKNNGMCRDGWNRYVCDCSGTG 423
>pdb|3R05|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
Splice Insert Ss3
pdb|3R05|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
Splice Insert Ss3
Length = 1254
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 105 QDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEF-CKKNLEEEKAGSLYVCGCPGTG 161
+D+ QM+ V+ STA C + K L CK N + YVC C GTG
Sbjct: 596 KDIRQMAEVQ-----STAGVKPSCSRETAKPCLSNPCKNNGMCRDGWNRYVCDCSGTG 648
>pdb|3QCW|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
Splice Inserts
pdb|3QCW|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
Splice Inserts
Length = 1245
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 105 QDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEF-CKKNLEEEKAGSLYVCGCPGTG 161
+D+ QM+ V+ STA C + K L CK N + YVC C GTG
Sbjct: 596 KDIRQMAEVQ-----STAGVKPSCSRETAKPCLSNPCKNNGMCRDGWNRYVCDCSGTG 648
>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 323
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 45/207 (21%), Positives = 87/207 (42%), Gaps = 38/207 (18%)
Query: 152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQP 211
+ + G PG GK+ S+ + H L+ + G V +N + + ++I
Sbjct: 45 MIISGMPGIGKTTSVHCLAHELLGRSYADG-----VLELNASDDRGIDVVRNQI------ 93
Query: 212 RKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFS 271
++ +KLH K ++I DE D + + L L + +
Sbjct: 94 --------------KHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNS-T 138
Query: 272 RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ 331
RF A A + +++ + LQS C L + + +D + R+LQ +++L + +
Sbjct: 139 RF-----AFACNQSNKIIEPLQS-QCAILRYS-KLSDEDVLKRLLQ--IIKLEDVKYTND 189
Query: 332 ALELCARKVAAASGDMRKALSVCRSAI 358
LE + A GDMR+A++ +S +
Sbjct: 190 GLEAI---IFTAEGDMRQAINNLQSTV 213
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 0.131 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,416,530
Number of Sequences: 62578
Number of extensions: 505722
Number of successful extensions: 1382
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1367
Number of HSP's gapped (non-prelim): 20
length of query: 517
length of database: 14,973,337
effective HSP length: 103
effective length of query: 414
effective length of database: 8,527,803
effective search space: 3530510442
effective search space used: 3530510442
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: 54 (25.4 bits)