>YMR309C NIP1 SGDID:S000004926, Chr XIII from 895425-892987, reverse
           complement, Verified ORF, "Subunit of the eukaryotic
           translation initiation factor 3 (eIF3), involved in the
           assembly of preinitiation complex and start codon
           selection"
          Length = 812

 Score =  163 bits (412), Expect = 5e-44
 Identities = 147/586 (25%), Positives = 257/586 (43%), Gaps = 47/586 (8%)

Query: 355 RVKLVIEKRGRKGLDKHEHINILSKLCEIAKTISTQSYIEVLEHLINLEFDVVSSVYTYM 414
           R++ +I+ RG+K +++   I+ L +L  +A+      +I     LI   FD  +++ +Y 
Sbjct: 257 RLQTIIDSRGKKTVNQQSLISTLEELLTVAE--KPYEFIMAYLTLIPSRFDASANL-SYQ 313

Query: 415 SFNIWNKVFKYVELILDILIQNENFYLVSXXXXXXXXXXXXXXXXXXXXS--CKTLISFX 472
             + W   F  +  +L IL Q  + Y V+                         ++ SF 
Sbjct: 314 PIDQWKSSFNDISKLLSILDQTIDTYQVNEFADPIDFIEDEPKEDSDGVKRILGSIFSFV 373

Query: 473 XXXXXXXXXXXXYIDVQTEEYRKRLGKTIHMIGLLKKGYNYVKC-LKNMPDLAIHISS-- 529
                        ID  + +Y  RL     +  L+ +   Y +  LK+  DL   ++   
Sbjct: 374 ERLDDEFMKSLLNIDPHSSDYLIRLRDEQSIYNLILRTQLYFEATLKDEHDLERALTRPF 433

Query: 530 -RILEHMYYKPEMLFKQIWTYLMNGKEMLSDSLNNSNNIASKEDGQGKKKKRIDNDLFDE 588
            + L+H+YYK E L K + T   N              I ++   +   K ++D+  + +
Sbjct: 434 VKRLDHIYYKSENLIKIMETAAWN-------------IIPAQFKSKFTSKDQLDSADYVD 480

Query: 589 KLINNDSINPPKXXXXXXXXXXXXGTKQQKVKALLQLSYNKSLYDEYLEAKELLNVANVH 648
            LI+  S    K                 + +A+L   Y  +L  ++  AK++L  + V 
Sbjct: 481 NLIDGLSTILSKQNNIAV-----------QKRAILYNIYYTALNKDFQTAKDMLLTSQVQ 529

Query: 649 ELAMNSDIQTQILYNRNLIQLGLCAFRHGKIYEAHCCLMEICSQNKHKELIAQGISN--- 705
                 D   QIL+NR ++QLGL AF+   I E H  L ++ S +  +E++ Q   +   
Sbjct: 530 TNINQFDSSLQILFNRVVVQLGLSAFKLCLIEECHQILNDLLSSSHLREILGQQSLHRIS 589

Query: 706 LKNQEKTLEQERAEKRRLLSYHMHISIELIECVNNICAMLLEVPNLAKNTYESKKDIIS- 764
           L +       ERA  R+ L YH HI+++LI+ V   C++L+E+P +       K   I  
Sbjct: 590 LNSSNNASADERA--RQCLPYHQHINLDLIDVVFLTCSLLIEIPRMTAFYSGIKVKRIPY 647

Query: 765 --RQFRRFLDIYDKQXXXXXXXXXXXXXXLATKHLQKGNWKLCCEKIFSLSIWPKFPDKE 822
             +  RR L+ YDK                A K +QKGNW+   + +  +  W   P+ E
Sbjct: 648 SPKSIRRSLEHYDKLSFQGPPETLRDYVLFAAKSMQKGNWRDSVKYLREIKSWALLPNME 707

Query: 823 KVQNILKEKIKQEAMRTYIFRYISIYESFSIDQLCVMFDLNQNVVHSILSKMMINQEIPA 882
            V N L E+++ E+++TY F +   Y SFS+ +L  +FDL +N V  +L  ++   EIPA
Sbjct: 708 TVLNSLTERVQVESLKTYFFSFKRFYSSFSVAKLAELFDLPENKVVEVLQSVIAELEIPA 767

Query: 883 FWNESSKFILISKVNPTTLQNLALKLAENVNEVMEQNELALNMKNP 928
             N+     ++ K +  T      KL E + ++ ++ ++A    NP
Sbjct: 768 KLNDEKTIFVVEKGDEIT------KLEEAMVKLNKEYKIAKERLNP 807

 Score = 21.9 bits (45), Expect = 0.18
 Identities = 10/37 (27%), Positives = 19/37 (51%)

Query: 340 ELLSTKNLTEDVIRERVKLVIEKRGRKGLDKHEHINI 376
           E+L  ++L    +        ++R R+ L  H+HIN+
Sbjct: 578 EILGQQSLHRISLNSSNNASADERARQCLPYHQHINL 614

 Score = 16.2 bits (30), Expect = 9.9
 Identities = 7/21 (33%), Positives = 12/21 (57%)

Query: 569 SKEDGQGKKKKRIDNDLFDEK 589
           S+E+     K R D + FD++
Sbjct: 206 SRENEDSMAKFRNDPESFDKE 226

Lambda     K      H
   0.317    0.132    0.378 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 1308
Number of extensions: 60
Number of successful extensions: 12
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5
Number of HSP's successfully gapped: 5
Length of query: 984
Length of database: 812
Length adjustment: 43
Effective length of query: 941
Effective length of database: 769
Effective search space:   723629
Effective search space used:   723629
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 30 (16.7 bits)
S2: 30 (16.2 bits)